User contributions
From Genome Analysis Wiki
Jump to navigationJump to search- 10:45, 21 November 2014 diff hist +263 Nm User talk:Mkarhade Welcome! current
- 10:45, 21 November 2014 diff hist +390 Nm User:Mkarhade Creating user page for new user. current
- 19:30, 20 November 2014 diff hist 0 File:Bam.png Mktrost uploaded a new version of "File:Bam.png" current
- 16:33, 19 November 2014 diff hist +77 N SeqShop: Sequence Mapping and Assembly Practical Mktrost moved page SeqShop: Sequence Mapping and Assembly Practical to SeqShop: Sequence Mapping and Assembly Practical, December 2014
- 16:33, 19 November 2014 diff hist 0 m SeqShop: Sequence Mapping and Assembly Practical, December 2014 Mktrost moved page SeqShop: Sequence Mapping and Assembly Practical to SeqShop: Sequence Mapping and Assembly Practical, December 2014
- 14:38, 13 November 2014 diff hist +22 SeqShop: Genetic Association Analysis Practical, June 2014
- 14:38, 13 November 2014 diff hist +11 SeqShop: Estimates of Genetic Ancestry Practical, June 2014
- 14:37, 13 November 2014 diff hist +44 SeqShop: Analysis of Structural Variation Practical, June 2014 current
- 14:37, 13 November 2014 diff hist +33 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 current
- 14:36, 13 November 2014 diff hist +33 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014 current
- 14:35, 13 November 2014 diff hist 0 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014
- 14:34, 13 November 2014 diff hist +22 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014
- 14:32, 13 November 2014 diff hist +203 SeqShop: Ancestry On Your Own Genome, June 2014 current
- 14:31, 13 November 2014 diff hist +2,676 N SeqShop: Ancestry On Your Own Genome, December 2014 Created page with "{{SeqShopLogin}} == Setup == Set these values. If you used a different path for any of these, please update here. Also, be sure to specify your sample name instead of Sampl..."
- 14:31, 13 November 2014 diff hist 0 m SeqShop: Ancestry On Your Own Genome, June 2014 Mktrost moved page SeqShop: Ancestry On Your Own Genome to SeqShop: Ancestry On Your Own Genome, June 2014 without leaving a redirect
- 14:31, 13 November 2014 diff hist +234 SeqShop: Friday - Practicing what we learned, June 2014 current
- 14:30, 13 November 2014 diff hist +200 SeqShop: Calling Your Own Genome, June 2014 current
- 14:30, 13 November 2014 diff hist +4,418 N SeqShop: Calling Your Own Genome, December 2014 Created page with "{{SeqShopLogin}} == Setup == Set these values. If you used a different path for any of these, please update here. Also, be sure to specify your sample name instead of Sampl..."
- 14:29, 13 November 2014 diff hist 0 m SeqShop: Calling Your Own Genome, June 2014 Mktrost moved page SeqShop: Calling Your Own Genome to SeqShop: Calling Your Own Genome, June 2014 without leaving a redirect
- 14:28, 13 November 2014 diff hist 0 m SeqShop: Friday - Practicing what we learned, June 2014 Mktrost moved page SeqShop: Friday - Practicing what we learned to SeqShop: Friday - Practicing what we learned, June 2014 without leaving a redirect
- 14:27, 13 November 2014 diff hist +19,651 N SeqShop: Genetic Association Analysis Practical, December 2014 Created page with "== Introduction == View Lecture Slides Media:Seqshop association practice 2014 06.pdf|View Introductory Slides for Practical Sessi..."
- 14:27, 13 November 2014 diff hist +233 SeqShop: Genetic Association Analysis Practical, June 2014
- 14:26, 13 November 2014 diff hist 0 m SeqShop: Genetic Association Analysis Practical, June 2014 Mktrost moved page SeqShop: Genetic Association Analysis Practical to SeqShop: Genetic Association Analysis Practical, June 2014 without leaving a redirect
- 14:26, 13 November 2014 diff hist +9,689 SeqShop: Estimates of Genetic Ancestry Practical, December 2014
- 14:26, 13 November 2014 diff hist +215 SeqShop: Estimates of Genetic Ancestry Practical, June 2014
- 14:25, 13 November 2014 diff hist +73 N SeqShop: Estimates of Genetic Ancestry Practical, December 2014 Mktrost moved page SeqShop: Estimates of Genetic Ancestry Practical to SeqShop: Estimates of Genetic Ancestry Practical, June 2014
- 14:25, 13 November 2014 diff hist 0 m SeqShop: Estimates of Genetic Ancestry Practical, June 2014 Mktrost moved page SeqShop: Estimates of Genetic Ancestry Practical to SeqShop: Estimates of Genetic Ancestry Practical, June 2014
- 14:25, 13 November 2014 diff hist +11,475 N SeqShop: Aligning Your Own Genome, December 2014 Created page with "== First Things First == *Helpful reference to many tools: ** http://infoplatter.wordpress.com/2014/04/06/bioinformaticians-pocket-reference/ *** links to "cheat-sheets", incl..."
- 14:25, 13 November 2014 diff hist +200 SeqShop: Aligning Your Own Genome, June 2014 current
- 14:24, 13 November 2014 diff hist 0 m SeqShop: Aligning Your Own Genome, June 2014 Mktrost moved page SeqShop: Aligning Your Own Genome to SeqShop: Aligning Your Own Genome, June 2014 without leaving a redirect
- 14:24, 13 November 2014 diff hist +17,120 N SeqShop: Analysis of Structural Variation Practical, December 2014 Created page with "== Goals of This Session == * What we want to learn is calling large deletions using GenomeSTRiP implemented in GotCloud pipeline ** How to prepare metadata for running Ge..."
- 14:24, 13 November 2014 diff hist +218 SeqShop: Analysis of Structural Variation Practical, June 2014
- 14:23, 13 November 2014 diff hist 0 m SeqShop: Analysis of Structural Variation Practical, June 2014 Mktrost moved page SeqShop: Analysis of Structural Variation Practical to SeqShop: Analysis of Structural Variation Practical, June 2014 without leaving a redirect
- 14:22, 13 November 2014 diff hist +226 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014
- 14:22, 13 November 2014 diff hist +22,606 SeqShop: Variant Calling and Filtering for INDELs Practical, December 2014
- 14:22, 13 November 2014 diff hist +84 N SeqShop: Variant Calling and Filtering for INDELs Practical, December 2014 Mktrost moved page SeqShop: Variant Calling and Filtering for INDELs Practical to SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014
- 14:22, 13 November 2014 diff hist 0 m SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014 Mktrost moved page SeqShop: Variant Calling and Filtering for INDELs Practical to SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014
- 14:21, 13 November 2014 diff hist +282 SeqShop: June 2014 current
- 14:20, 13 November 2014 diff hist +1 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014
- 14:20, 13 November 2014 diff hist +8 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014
- 14:15, 13 November 2014 diff hist +19,674 SeqShop: Variant Calling and Filtering for SNPs Practical, December 2014
- 14:12, 13 November 2014 diff hist +215 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014
- 14:12, 13 November 2014 diff hist +214 SeqShop: Sequence Mapping and Assembly Practical, June 2014
- 14:11, 13 November 2014 diff hist +16,464 N SeqShop: Sequence Mapping and Assembly Practical, December 2014 Created page with "== Introduction == See the introductory slides for an intro to this tutorial. == Goals of This Session == * What we want to learn ** B..."
- 14:10, 13 November 2014 diff hist 0 m SeqShop: Sequence Mapping and Assembly Practical, June 2014 Mktrost moved page SeqShop: Sequence Mapping and Assembly Practical to SeqShop: Sequence Mapping and Assembly Practical, June 2014 without leaving a redirect
- 14:09, 13 November 2014 diff hist +82 N SeqShop: Variant Calling and Filtering for SNPs Practical, December 2014 Mktrost moved page SeqShop: Variant Calling and Filtering for SNPs Practical to SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014
- 14:09, 13 November 2014 diff hist 0 m SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 Mktrost moved page SeqShop: Variant Calling and Filtering for SNPs Practical to SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014
- 14:06, 13 November 2014 diff hist +1,543 N SeqShop: December 2014 Created page with "Sequence Analysis Workshop December 8-12, 2014: http://seqshop.sph.umich.edu/ {| class="wikitable" cellpadding=5 |- ! style="background:#ABE" | Monday Lecture !! style="back..."
- 14:04, 13 November 2014 diff hist +129 Short Workshops →Low Pass Whole Genomes
- 14:04, 13 November 2014 diff hist +32 N SeqShop Mktrost moved page SeqShop to SeqShop: June 2014: Multiple SeqShops current
- 14:04, 13 November 2014 diff hist 0 m SeqShop: June 2014 Mktrost moved page SeqShop to SeqShop: June 2014: Multiple SeqShops
- 16:01, 10 November 2014 diff hist 0 N File:Main.cpp.doc current
- 16:00, 10 November 2014 diff hist 0 N File:Goncalo'sClass 11 10 2014.pdf current
- 10:49, 7 November 2014 diff hist +95 StarCluster →Running GotCloud on StarCluster current
- 16:49, 5 November 2014 diff hist +771 Amazon Storage current
- 12:57, 31 October 2014 diff hist +146 StarCluster →Terminate the Demo Cluster
- 12:55, 31 October 2014 diff hist +179 GotCloud: Amazon Demo current
- 12:53, 31 October 2014 diff hist -359 StarCluster
- 12:53, 31 October 2014 diff hist -262 StarCluster →Running GotCloud on StarCluster
- 12:52, 31 October 2014 diff hist -560 GotCloud: Amazon Demo →Run GotCloud ldrefine
- 12:52, 31 October 2014 diff hist +1,470 GotCloud: Amazon Demo →Run GotCloud Indel
- 12:48, 31 October 2014 diff hist +1,102 GotCloud: Amazon Demo
- 12:46, 31 October 2014 diff hist +326 StarCluster →Run GotCloud Indel Demo
- 12:45, 31 October 2014 diff hist +303 StarCluster →Run GotCloud Demo Using StarCluster
- 12:14, 31 October 2014 diff hist -24 StarCluster →StarCluster Config Settings
- 12:13, 31 October 2014 diff hist +451 StarCluster →StarCluster Config Settings
- 12:08, 31 October 2014 diff hist +9 StarCluster
- 12:07, 31 October 2014 diff hist +1,708 StarCluster
- 11:22, 31 October 2014 diff hist +1,622 StarCluster →StarCluster and GotCloud
- 09:41, 31 October 2014 diff hist +1,566 StarCluster →Run GotCloud Demo Using StarCluster
- 09:37, 31 October 2014 diff hist 0 N File:Qhost.png current
- 09:34, 31 October 2014 diff hist 0 N File:Qstatf.png current
- 09:10, 31 October 2014 diff hist 0 File:Qstat.png Mktrost uploaded a new version of "File:Qstat.png" current
- 09:08, 31 October 2014 diff hist 0 N File:Qstat.png
- 08:38, 31 October 2014 diff hist +50 N GotCloud: Amazon Demo Setup Mktrost moved page GotCloud: Amazon Demo Setup to Template:GotCloud: Amazon Demo Setup current
- 08:38, 31 October 2014 diff hist 0 m Template:GotCloud: Amazon Demo Setup Mktrost moved page GotCloud: Amazon Demo Setup to Template:GotCloud: Amazon Demo Setup current
- 08:37, 31 October 2014 diff hist -1,618 GotCloud: Amazon Demo →Running the Demo on Already Running Node
- 08:37, 31 October 2014 diff hist +1,669 N Template:GotCloud: Amazon Demo Setup Created page with "{{{hdr|===}}} Examine the Setup {{{hdr|===}}} #After logging into the Amazon node as the ubuntu user, you should by default be in the ubuntu home directory: <code>/home/ubuntu..."
- 17:18, 30 October 2014 diff hist +2,798 StarCluster
- 15:56, 30 October 2014 diff hist +403 N GotCloud: AMIs Created page with " {| class="wikitable" style="margin: 1em 1em 1em 0; background-color: #f9f9f9; border: 1px #aaa solid; border-collapse: collapse;" border="1" |+ GotCloud Public AMIs ! GotClou..." current
- 12:26, 30 October 2014 diff hist +487 BamUtil: bam2FastQ
- 17:36, 29 October 2014 diff hist +358 StarCluster
- 17:35, 29 October 2014 diff hist +624 StarCluster
- 17:31, 29 October 2014 diff hist +1,556 N AWS Credentials Created page with " AWS Access Keys are required for interfacing with AWS through the command-line interface. * Different from the key pair used to validate logins If you have not setup AWS Cre..." current
- 15:31, 29 October 2014 diff hist -2 GotCloud: Amazon Demo →Examining SnpCall Output
- 10:59, 29 October 2014 diff hist +121 GotCloud: Variant Calling Pipeline →Results
- 10:56, 29 October 2014 diff hist -1,890 GotCloud: Variant Calling Pipeline
- 10:53, 29 October 2014 diff hist +149 GotCloud: Filters current
- 10:52, 29 October 2014 diff hist +69 GotCloud: Variant Calling Options →Hard Filtering Options
- 10:15, 29 October 2014 diff hist +882 GotCloud: Variant Calling Options →Hard Filtering Options
- 10:13, 29 October 2014 diff hist -10 GotCloud: Filters →Hard Filters
- 17:21, 28 October 2014 diff hist +2,502 GotCloud: Variant Calling Options →Hard Filtering Options
- 15:51, 28 October 2014 diff hist +373 GotCloud: Variant Calling Options
- 15:47, 28 October 2014 diff hist +1,357 GotCloud: Variant Calling Options →Options
- 10:35, 28 October 2014 diff hist +159 GotCloud: Variant Calling Options →Analysis Region Options
- 14:29, 24 October 2014 diff hist +294 GotCloud: Variant Calling Options →Analysis Region Options
- 14:28, 24 October 2014 diff hist +6,752 GotCloud: Variant Calling Options →Miscellaneous Options
- 12:10, 24 October 2014 diff hist +1,827 GotCloud: Variant Calling Options
- 11:56, 24 October 2014 diff hist +34 GotCloud: Variant Calling Options →Required Options
- 11:54, 24 October 2014 diff hist 0 GotCloud: Variant Calling Options
- 11:53, 24 October 2014 diff hist +3 GotCloud: Variant Calling Options →Cluster Options
- 11:53, 24 October 2014 diff hist +3 GotCloud: Variant Calling Options →Analysis Region Options
- 11:46, 24 October 2014 diff hist +1,836 GotCloud: Variant Calling Options
- 11:32, 24 October 2014 diff hist +213 GotCloud: Variant Calling Options
- 11:18, 24 October 2014 diff hist +2,366 N GotCloud: Variant Calling Options Created page with " {| class="wikitable" style="margin: 1em 1em 1em 0; background-color: #f9f9f9; border: 1px #aaa solid; border-collapse: collapse;" border="1" ! Command-line Flag !! Configura..."
- 10:17, 24 October 2014 diff hist -9 GotCloud: Variant Calling Pipeline →Additional Required User Config Files Settings
- 18:54, 23 October 2014 diff hist -1 GotCloud: Variant Calling Pipeline →Running
- 18:53, 23 October 2014 diff hist +230 GotCloud: Configuration current
- 18:49, 23 October 2014 diff hist -353 GotCloud: Variant Calling Pipeline →Example Configuration File
- 18:47, 23 October 2014 diff hist +238 GotCloud: Variant Calling Pipeline →Chromosome X Calling
- 18:45, 23 October 2014 diff hist +137 GotCloud: Variant Calling Pipeline →Chromosome X Calling
- 18:33, 23 October 2014 diff hist +151 GotCloud: Variant Calling Pipeline →Targeted/Exome Sequencing Settings
- 18:30, 23 October 2014 diff hist +161 GotCloud: Variant Calling Pipeline →Targeted/Exome Sequencing Settings
- 18:14, 23 October 2014 diff hist +280 GotCloud: Variant Calling Pipeline →Configuration File
- 18:10, 23 October 2014 diff hist +13 GotCloud: Variant Calling Pipeline →Running on a Cluster
- 18:09, 23 October 2014 diff hist -1,370 GotCloud: Variant Calling Pipeline →Running on a Cluster
- 18:08, 23 October 2014 diff hist +210 GotCloud: Configuration →Cluster Configuration
- 18:05, 23 October 2014 diff hist -1 GotCloud: Configuration
- 18:05, 23 October 2014 diff hist +4 GotCloud: Configuration
- 18:04, 23 October 2014 diff hist +32 GotCloud: Variant Calling Pipeline
- 18:02, 23 October 2014 diff hist -1,073 GotCloud: Alignment Pipeline →Configuration File
- 18:01, 23 October 2014 diff hist +1 GotCloud: Configuration
- 18:01, 23 October 2014 diff hist -665 GotCloud: Variant Calling Pipeline →Configuration File
- 17:59, 23 October 2014 diff hist +386 GotCloud: Configuration
- 17:48, 23 October 2014 diff hist +2,266 N GotCloud: Configuration Created page with "The GotCloud configuration file contains the run-time options, including software binaries and command line arguments. A default configuration file is automatically loaded. ..."
- 16:53, 23 October 2014 diff hist -14 GotCloud: Variant Calling Pipeline →BAM List File
- 16:52, 23 October 2014 diff hist +186 GotCloud: Variant Calling Pipeline →Running
- 16:49, 23 October 2014 diff hist +74 GotCloud: Variant Calling Pipeline →Input Data
- 16:47, 23 October 2014 diff hist +37 GotCloud: Genetic Reference and Resource Files →Downloadable Reference and Resource Files
- 16:47, 23 October 2014 diff hist +96 GotCloud: Genetic Reference and Resource Files →Downloadable Reference and Resource Files
- 14:14, 23 October 2014 diff hist +2 GotCloud: Genetic Reference and Resource Files
- 14:13, 23 October 2014 diff hist +55 GotCloud: Genetic Reference and Resource Files →Downloadable Reference and Resource Files
- 14:12, 23 October 2014 diff hist +110 GotCloud: Genetic Reference and Resource Files →Genetic Reference and Resource Files
- 14:08, 23 October 2014 diff hist +83 GotCloud: Variant Calling Pipeline →Input Data
- 14:06, 23 October 2014 diff hist +15 GotCloud: Genetic Reference and Resource Files →INDEL VCF File(s)
- 14:05, 23 October 2014 diff hist +2 GotCloud: Genetic Reference and Resource Files →Downloadable Reference and Resource Files
- 14:04, 23 October 2014 diff hist -360 GotCloud: Alignment Pipeline →Reference Files
- 14:04, 23 October 2014 diff hist +80 GotCloud: Genetic Reference and Resource Files →Additional files generated from the reference fasta
- 14:01, 23 October 2014 diff hist -52 GotCloud: Variant Calling Pipeline →Reference Files
- 14:00, 23 October 2014 diff hist -255 GotCloud: Variant Calling Pipeline →Input Data
- 13:59, 23 October 2014 diff hist -458 GotCloud: Genetic Reference and Resource Files →Downloadable Reference and Resource Files
- 13:59, 23 October 2014 diff hist +59 GotCloud: Genetic Reference and Resource Files →Downloadable Reference and Resource Files
- 13:55, 23 October 2014 diff hist +2 GotCloud: Genetic Reference and Resource Files →Genetic Reference and Resource Files
- 13:55, 23 October 2014 diff hist +254 GotCloud: Genetic Reference and Resource Files →Genetic Reference and Resource Files
- 13:49, 23 October 2014 diff hist +342 GotCloud: Genetic Reference and Resource Files →INDEL VCF File(s)
- 13:47, 23 October 2014 diff hist +4 GotCloud: Genetic Reference and Resource Files
- 13:46, 23 October 2014 diff hist +3,565 GotCloud: Genetic Reference and Resource Files →Genetic Reference and Resource Files
- 12:50, 23 October 2014 diff hist +18 GotCloud: Genetic Reference and Resource Files
- 12:49, 23 October 2014 diff hist +61 GotCloud: Genetic Reference and Resource Files →Additional files generated from the reference fasta
- 12:49, 23 October 2014 diff hist -36 GotCloud: Genetic Reference and Resource Files →Using Your own Reference Files
- 12:49, 23 October 2014 diff hist -1,398 GotCloud: Genetic Reference and Resource Files →Human Reference
- 12:47, 23 October 2014 diff hist +26 GotCloud: Genetic Reference and Resource Files →Additional files generated from the reference fasta
- 12:47, 23 October 2014 diff hist +86 GotCloud: Genetic Reference and Resource Files →Human Reference Files
- 12:44, 23 October 2014 diff hist +628 GotCloud: Genetic Reference and Resource Files →Human Reference Files
- 11:51, 23 October 2014 diff hist +1,346 GotCloud: Genetic Reference and Resource Files →Required Files
- 10:35, 23 October 2014 diff hist +55 GotCloud: Alignment Pipeline →Reference Files
- 10:14, 23 October 2014 diff hist +263 GotCloud: Variant Calling Pipeline →Running the GotCloud Variant Calling Pipeline
- 10:04, 23 October 2014 diff hist +1 GotCloud: Alignment Pipeline →Alignment Pipeline Output
- 10:03, 23 October 2014 diff hist -6 Understanding QPLOT output current
- 16:50, 22 October 2014 diff hist +1,197 GotCloud: Alignment Pipeline →Alignment Pipeline Output
- 16:40, 22 October 2014 diff hist +851 GotCloud: Alignment Pipeline →Running the Alignment Pipeline
- 18:37, 19 October 2014 diff hist +140 GotCloud: Alignment Pipeline →Reference Files
- 18:34, 19 October 2014 diff hist -9 GotCloud: Alignment Pipeline →Required Settings
- 18:32, 19 October 2014 diff hist +159 GotCloud: Alignment Pipeline →Turning Off Optional Steps
- 18:30, 19 October 2014 diff hist -145 GotCloud: Alignment Pipeline →Reference Files
- 18:22, 19 October 2014 diff hist +391 GotCloud: Alignment Pipeline →FASTQ List File
- 18:16, 19 October 2014 diff hist +156 GotCloud: Alignment Pipeline →Optional Configurable Settings
- 18:13, 19 October 2014 diff hist +1,156 GotCloud: Alignment Pipeline →Command-Line Options
- 17:50, 19 October 2014 diff hist -1,950 GotCloud: Amazon Demo
- 17:49, 19 October 2014 diff hist +282 GotCloud: Alignment Pipeline →Running the GotCloud Alignment Pipeline
- 17:47, 19 October 2014 diff hist +338 GotCloud: Amazon Demo →Exit & Terminate
- 14:24, 17 October 2014 diff hist -4 GotCloud: Amazon Demo →Run GotCloud Indel
- 14:23, 17 October 2014 diff hist +1,094 GotCloud: Amazon Demo →Examining Indel Output
- 14:23, 17 October 2014 diff hist 0 N File:IndelTabix.png current
- 14:22, 17 October 2014 diff hist 0 N File:IndelLess.png current
- 14:21, 17 October 2014 diff hist 0 N File:IndelFinal.png current
- 14:13, 17 October 2014 diff hist 0 N File:IndelSnpOutput.png current
- 14:11, 17 October 2014 diff hist +171 GotCloud: Amazon Demo →Examining SnpCall Output
- 14:11, 17 October 2014 diff hist 0 N File:SnpVcfOutput.png current
- 14:10, 17 October 2014 diff hist 0 N File:SnpTabix.png current
- 14:07, 17 October 2014 diff hist 0 N File:SnpSummary.png current
- 14:06, 17 October 2014 diff hist +584 GotCloud: Amazon Demo →Run GotCloud SnpCall
- 14:06, 17 October 2014 diff hist 0 N File:IndelSuccess.png current
- 14:05, 17 October 2014 diff hist 0 N File:RunIndel.png current
- 14:03, 17 October 2014 diff hist +408 GotCloud: Amazon Demo →Examining SnpCall Output
- 12:57, 17 October 2014 diff hist +1,061 GotCloud: Amazon Demo →Examining SnpCall Output
- 12:50, 17 October 2014 diff hist 0 GotCloud: Amazon Demo →Examining SnpCall Output
- 10:59, 17 October 2014 diff hist 0 GotCloud: Amazon Demo →Examining SnpCall Output
- 10:58, 17 October 2014 diff hist +235 GotCloud: Amazon Demo →Examining SnpCall Output
- 10:57, 17 October 2014 diff hist 0 N File:SnpCallOutput2.png current
- 10:56, 17 October 2014 diff hist 0 N File:SnpCallOutput1.png current
- 10:06, 17 October 2014 diff hist +42 GotCloud: Amazon Demo →Run GotCloud SnpCall
- 10:05, 17 October 2014 diff hist +1 GotCloud: Amazon Demo →Examine the Setup
- 09:59, 17 October 2014 diff hist 0 File:RunSnpCall.png Mktrost uploaded a new version of "File:RunSnpCall.png" current
- 09:58, 17 October 2014 diff hist +680 GotCloud: Amazon Demo →Running the Demo on Already Running Node
- 09:58, 17 October 2014 diff hist 0 N File:SnpcallSuccess.png current
- 09:53, 17 October 2014 diff hist 0 N File:RunSnpCall.png
- 09:50, 17 October 2014 diff hist +2,247 GotCloud: Amazon Demo
- 09:45, 17 October 2014 diff hist 0 N File:ConfContents.png current
- 09:44, 17 October 2014 diff hist 0 N File:BedContents.png current
- 09:39, 17 October 2014 diff hist 0 N File:ExampleFiles.png current
- 09:35, 17 October 2014 diff hist 0 File:DemoHome.png Mktrost uploaded a new version of "File:DemoHome.png" current
- 09:32, 17 October 2014 diff hist 0 N File:DemoHome.png
- 09:02, 17 October 2014 diff hist +34 GotCloud →Running GotCloud Software
- 16:52, 16 October 2014 diff hist +95 GotCloud: Amazon Demo
- 16:51, 16 October 2014 diff hist +16 Amazon Single Node →Starting the GotCloud AMI current
- 16:50, 16 October 2014 diff hist +438 Amazon Single Node →Starting the GotCloud AMI
- 15:24, 16 October 2014 diff hist +1,316 Amazon Single Node →Starting the GotCloud AMI
- 15:24, 16 October 2014 diff hist 0 N File:RunningInstance1.png current
- 14:21, 16 October 2014 diff hist -1 GotCloud →Running GotCloud Software
- 10:07, 16 October 2014 diff hist +34 GotCloud: Amazon
- 10:07, 16 October 2014 diff hist +8 Amazon Single Node
- 09:54, 16 October 2014 diff hist +251 Amazon Single Node →Introduction
- 09:53, 16 October 2014 diff hist +53 GotCloud →GotCloud Setup
- 09:50, 16 October 2014 diff hist +250 GotCloud
- 09:47, 16 October 2014 diff hist +176 GotCloud →Running GotCloud Software
- 09:45, 16 October 2014 diff hist +375 GotCloud →Running GotCloud Software
- 09:42, 16 October 2014 diff hist +62 GotCloud →Running GotCloud Software
- 09:42, 16 October 2014 diff hist +34 GotCloud →Development Notes
- 09:39, 16 October 2014 diff hist +146 Configure GotCloud current
- 09:37, 16 October 2014 diff hist +92 GotCloud →GotCloud Reference/Resource Files
- 09:36, 16 October 2014 diff hist +8 GotCloud →Install GotCloud Software
- 22:02, 15 October 2014 diff hist -76 GotCloud →Install GotCloud Software
- 21:04, 15 October 2014 diff hist -32 GotCloud →Genomes on the Cloud (GotCloud) Introduction
- 21:00, 15 October 2014 diff hist +48 GotCloud
- 20:58, 15 October 2014 diff hist 0 N File:Gotcloud.puzzles.v2.png current
- 20:55, 15 October 2014 diff hist +426 Amazon Single Node →Starting the GotCloud AMI
- 17:25, 15 October 2014 diff hist +43 GotCloud: Amazon Demo
- 17:23, 15 October 2014 diff hist +383 Amazon Single Node
- 17:22, 15 October 2014 diff hist 0 File:LaunchAMI 1.png Mktrost uploaded a new version of "File:LaunchAMI 1.png" current
- 17:22, 15 October 2014 diff hist 0 N File:ReviewInstance1.png current
- 17:22, 15 October 2014 diff hist 0 File:InstanceType1.png Mktrost uploaded a new version of "File:InstanceType1.png" current
- 17:14, 15 October 2014 diff hist +493 Amazon Single Node →Starting the GotCloud AMI
- 17:13, 15 October 2014 diff hist 0 N File:InstanceType1.png
- 17:07, 15 October 2014 diff hist 0 N File:LaunchAMI 1.png
- 17:01, 15 October 2014 diff hist +533 Amazon Single Node
- 16:58, 15 October 2014 diff hist 0 File:Dashboard.png Mktrost uploaded a new version of "File:Dashboard.png" current
- 16:18, 15 October 2014 diff hist 0 N File:Dashboard Launch.png current
- 16:12, 15 October 2014 diff hist 0 N File:Dashboard East.png current
- 16:07, 15 October 2014 diff hist 0 N File:Dashboard.png
- 15:36, 15 October 2014 diff hist -191 GotCloud: Amazon Demo
- 15:35, 15 October 2014 diff hist +214 N Amazon Single Node Created page with "== Starting GotCloud AMI == After creating an amazon account (https://aws.amazon.com/), you can run the GotCloud demo on Amazon. The GotCloud AMI has the Demo data built into..."
- 15:31, 15 October 2014 diff hist -44 GotCloud: Amazon
- 14:13, 15 October 2014 diff hist +13 GotCloud: Amazon Demo
- 14:10, 15 October 2014 diff hist +208 N GotCloud: Amazon Demo Created page with "__TOC__ == Initial Setup == After creating an amazon account (https://aws.amazon.com/), you can run the GotCloud demo on Amazon. == Starting GotCloud AMI == The GotCloud AMI..."
- 22:50, 14 October 2014 diff hist +163 GotCloud: Alignment Pipeline →Input Data:
- 14:54, 14 October 2014 diff hist +65 Creating an AMI on EC2 →Cleanup Instance for AMI Creation current
- 14:30, 14 October 2014 diff hist +2 Creating an AMI on EC2 →Cleanup Instance for AMI Creation
- 14:26, 14 October 2014 diff hist +44 Creating an AMI on EC2 →Cleanup Instance for AMI Creation
- 14:21, 14 October 2014 diff hist -171 Creating an AMI on EC2 →Cleanup Instance for AMI Creation
- 10:26, 14 October 2014 diff hist +893 Creating an AMI on EC2
- 16:35, 10 October 2014 diff hist +41 Creating an AMI on EC2
- 16:34, 10 October 2014 diff hist +124 Creating an AMI on EC2
- 13:29, 10 October 2014 diff hist -438 Creating an AMI on EC2
- 09:37, 10 October 2014 diff hist +124 GotCloud: Amazon
- 20:50, 9 October 2014 diff hist +1,352 Creating an AMI on EC2 →Create Image
- 20:06, 9 October 2014 diff hist -1,336 Creating an AMI on EC2 →Create the AMI
- 20:05, 9 October 2014 diff hist -75 Creating an AMI on EC2 →Install GotCloud in ubuntu home directory
- 20:05, 9 October 2014 diff hist +319 Creating an AMI on EC2 →Setup the instance with GotCloud
- 17:16, 9 October 2014 diff hist 0 Creating an AMI on EC2 →Launch an instance
- 17:15, 9 October 2014 diff hist +546 Creating an AMI on EC2 →Setup the instance with GotCloud
- 16:01, 9 October 2014 diff hist +1 Creating an AMI on EC2 →Launch an instance
- 15:47, 9 October 2014 diff hist +620 Creating an AMI on EC2 →Launch an instance
- 14:28, 9 October 2014 diff hist -67 Creating an AMI on EC2 →Launch an instance
- 14:22, 9 October 2014 diff hist +445 Creating an AMI on EC2
- 13:19, 6 October 2014 diff hist -154 GotCloud: Reference Files →GotCloud Reference Files current
- 11:58, 29 September 2014 diff hist +571 GotCloud: FAQs →Alignment Pipeline FAQs
- 16:58, 25 September 2014 diff hist 0 GotCloud: Genetic Reference and Resource Files
- 09:04, 25 September 2014 diff hist +264 Nm User talk:Pmurphy Welcome! current
- 09:04, 25 September 2014 diff hist +534 Nm User:Pmurphy Creating user page for new user. current
- 16:50, 23 September 2014 diff hist +337 Examples of Read Mapping with Karma and BWA current
- 14:33, 23 September 2014 diff hist +143 Debuggers →Other Testing Advice current
- 14:17, 23 September 2014 diff hist +51 Debuggers →DDD
- 13:06, 23 September 2014 diff hist +115 BamUtil: stats →Overview of the stats function of bamUtil
- 13:04, 23 September 2014 diff hist +1,530 BamUtil: FAQ current
- 16:59, 8 September 2014 diff hist +263 Nm User talk:Kafkaskid415 Welcome! current
- 16:59, 8 September 2014 diff hist +486 Nm User:Kafkaskid415 Creating user page for new user. current
- 16:09, 8 September 2014 diff hist 0 GotCloud: FAQs →Targetted/Exome
- 15:53, 4 September 2014 diff hist +137 VcfRefGen →Parameter current
- 15:49, 4 September 2014 diff hist +97 VcfRefGen
- 15:49, 4 September 2014 diff hist 0 N File:VcfRefGen.0.1.4.tgz current
- 09:18, 29 August 2014 diff hist +954 GotCloud: Versions
- 17:08, 25 August 2014 diff hist +1,748 GotCloud: FAQs →Variant Calling Pipeline FAQs
- 15:28, 8 August 2014 diff hist +468 GotCloud: Variant Calling Pipeline →Running on a Cluster
- 15:18, 8 August 2014 diff hist +86 GotCloud: Variant Calling Pipeline →Reference Files
- 15:18, 8 August 2014 diff hist +183 GotCloud: Variant Calling Pipeline →Reference Files
- 15:15, 8 August 2014 diff hist -10 GotCloud: Variant Calling Pipeline →BAM files
- 15:15, 8 August 2014 diff hist +18 GotCloud: Variant Calling Pipeline →Running the Automatic Test
- 09:01, 8 August 2014 diff hist -7 GotCloud: Amazon
- 09:01, 8 August 2014 diff hist +1 GotCloud: Amazon
- 09:00, 8 August 2014 diff hist +158 GotCloud: Amazon
- 19:56, 4 August 2014 diff hist +260 Nm User talk:Alextsoi Welcome! current
- 19:56, 4 August 2014 diff hist +605 Nm User:Alextsoi Creating user page for new user. current
- 21:20, 22 July 2014 diff hist +4 SeqShop: June 2014
- 21:20, 22 July 2014 diff hist +34 SeqShop: June 2014
- 10:11, 18 July 2014 diff hist -29 SeqShop: June 2014
- 10:04, 18 July 2014 diff hist +32 SeqShop: June 2014
- 09:29, 15 July 2014 diff hist 0 GotCloud: Versions →Version 1.13 (Full Release on 7/15/2014)
- 09:29, 15 July 2014 diff hist +1,006 GotCloud: Versions
- 11:44, 11 July 2014 diff hist -43 SeqShop: Friday - Practicing what we learned, June 2014
- 11:14, 11 July 2014 diff hist +91 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP 3rd-party Site Genotyping/Filtering Pipeline
- 11:14, 11 July 2014 diff hist +91 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP Genotyping Pipeline
- 10:59, 11 July 2014 diff hist +66 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014 →Comparison with other data sets
- 10:57, 11 July 2014 diff hist 0 N File:IndelRef.png
- 10:35, 11 July 2014 diff hist +91 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014 →Comparison with other data sets
- 10:22, 11 July 2014 diff hist +23 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Genotype Refinement Output
- 09:41, 11 July 2014 diff hist +1 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →GotCloud BAM Index File
- 09:05, 11 July 2014 diff hist +17 SeqShop: Analysis of Structural Variation Practical, June 2014
- 09:05, 11 July 2014 diff hist +663 SeqShop: Analysis of Structural Variation Practical, June 2014 →Goals of This Session
- 16:48, 10 July 2014 diff hist +397 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →GotCloud BAM Index File
- 16:39, 10 July 2014 diff hist 0 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Reference Files
- 16:36, 10 July 2014 diff hist 0 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Reference Files
- 16:34, 10 July 2014 diff hist 0 File:RefDir.png Mktrost uploaded a new version of "File:RefDir.png"
- 16:23, 10 July 2014 diff hist 0 File:SeqShop - GotCloud snpcall.pdf Mktrost uploaded a new version of "File:SeqShop - GotCloud snpcall.pdf" current
- 16:19, 10 July 2014 diff hist +2 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014
- 14:45, 10 July 2014 diff hist 0 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →GotCloud FASTQ Index File
- 14:43, 10 July 2014 diff hist 0 File:FqindexRG.png Mktrost uploaded a new version of "File:FqindexRG.png" current
- 14:37, 10 July 2014 diff hist 0 File:Fqindex.png Mktrost uploaded a new version of "File:Fqindex.png" current
- 14:37, 10 July 2014 diff hist 0 File:Fqindex.png Mktrost uploaded a new version of "File:Fqindex.png"
- 14:08, 10 July 2014 diff hist 0 File:SeqShop - GotCloud Align.pdf Mktrost uploaded a new version of "File:SeqShop - GotCloud Align.pdf" current
- 14:07, 10 July 2014 diff hist 0 File:GcConf.png Mktrost uploaded a new version of "File:GcConf.png" current
- 14:06, 10 July 2014 diff hist 0 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →GotCloud Configuration File
- 14:05, 10 July 2014 diff hist -24 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →GotCloud Configuration File
- 14:04, 10 July 2014 diff hist 0 File:GcConf.png Mktrost uploaded a new version of "File:GcConf.png"
- 14:03, 10 July 2014 diff hist 0 File:SeqShop - GotCloud Align.pdf Mktrost uploaded a new version of "File:SeqShop - GotCloud Align.pdf"
- 13:52, 10 July 2014 diff hist 0 File:SeqShop - GotCloud Align.pdf Mktrost uploaded a new version of "File:SeqShop - GotCloud Align.pdf"
- 13:08, 10 July 2014 diff hist 0 SeqShop: Genetic Association Analysis Practical, June 2014 →Download & Build EPACTS
- 11:43, 10 July 2014 diff hist -4 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →QC Metrics
- 11:22, 10 July 2014 diff hist 0 SeqShop: Genetic Association Analysis Practical, June 2014 →Run Groupwise Test
- 11:07, 10 July 2014 diff hist -297 SeqShop: Genetic Association Analysis Practical, June 2014 →FEEDBACK
- 10:59, 10 July 2014 diff hist +10 SeqShop: Genetic Association Analysis Practical, June 2014 →Download & Build EPACTS
- 10:58, 10 July 2014 diff hist +2,040 SeqShop: Genetic Association Analysis Practical, June 2014
- 10:00, 10 July 2014 diff hist +29 SeqShop: Estimates of Genetic Ancestry Practical, June 2014 →Step 2: Combine results
- 09:47, 10 July 2014 diff hist -2 SeqShop: Estimates of Genetic Ancestry Practical, June 2014 →Step 2: pileup --> seq
- 09:43, 10 July 2014 diff hist +12 SeqShop: Estimates of Genetic Ancestry Practical, June 2014 →Step 1: bam --> pileup
- 09:40, 10 July 2014 diff hist +1 SeqShop: Estimates of Genetic Ancestry Practical, June 2014 →Setup when running on your own outside of the SeqShop Workshop
- 09:40, 10 July 2014 diff hist -780 SeqShop: Estimates of Genetic Ancestry Practical, June 2014
- 09:33, 10 July 2014 diff hist +367 SeqShop: Estimates of Genetic Ancestry Practical, June 2014
- 09:26, 10 July 2014 diff hist +4 SeqShop: June 2014
- 17:12, 9 July 2014 diff hist 0 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP 3rd-party Site Genotyping/Filtering Pipeline
- 17:11, 9 July 2014 diff hist +15 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP 3rd-party Site Genotyping/Filtering Pipeline
- 17:09, 9 July 2014 diff hist +5 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP 3rd-party Site Genotyping/Filtering Pipeline
- 16:56, 9 July 2014 diff hist +48 SeqShop: Analysis of Structural Variation Practical, June 2014
- 15:53, 9 July 2014 diff hist 0 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP Metadata Pipeline
- 15:51, 9 July 2014 diff hist -715 SeqShop: Analysis of Structural Variation Practical, June 2014 →Setup when running on your own outside of the SeqShop Workshop
- 15:47, 9 July 2014 diff hist 0 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014 →Summary
- 15:42, 9 July 2014 diff hist +17 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014
- 15:41, 9 July 2014 diff hist -14 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014 →Summary
- 13:56, 9 July 2014 diff hist 0 File:IndelOut.png Mktrost uploaded a new version of "File:IndelOut.png"
- 13:26, 9 July 2014 diff hist -714 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014 →Setup when running on your own outside of the SeqShop Workshop
- 11:57, 9 July 2014 diff hist +16 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Improvements
- 11:48, 9 July 2014 diff hist +183 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Running GotCloud Genotype Refinement
- 11:45, 9 July 2014 diff hist 0 N File:GcldrefineOut.png current
- 11:45, 9 July 2014 diff hist -175 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Genotype Refinement Output
- 11:27, 9 July 2014 diff hist 0 File:GcsnpcallOut.png Mktrost uploaded a new version of "File:GcsnpcallOut.png" current
- 11:01, 9 July 2014 diff hist +6 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →GotCloud BAM Index File
- 10:59, 9 July 2014 diff hist -979 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Setup when running on your own outside of the SeqShop Workshop
- 10:59, 9 July 2014 diff hist -886 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Setup your run environment
- 10:59, 9 July 2014 diff hist +906 N Template:SeqShopRemoteEnv Created page with "=== Setup your run environment === Environment variables will be used throughout the tutorial. We recommend that you setup these variables so you won't have to modify every ..."
- 10:48, 9 July 2014 diff hist -180 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Setup your run environment
- 12:08, 7 July 2014 diff hist +265 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Logging Off
- 12:05, 7 July 2014 diff hist 0 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →QC Metrics
- 12:02, 7 July 2014 diff hist 0 File:Contam1.png Mktrost uploaded a new version of "File:Contam1.png" current
- 12:02, 7 July 2014 diff hist 0 File:Contam1.png Mktrost uploaded a new version of "File:Contam1.png"
- 11:08, 7 July 2014 diff hist +134 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Download the example data
- 11:07, 7 July 2014 diff hist -7 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Setup your run environment
- 10:57, 7 July 2014 diff hist +106 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Download the example data
- 10:06, 7 July 2014 diff hist +852 Debuggers
- 16:15, 3 July 2014 diff hist +2,449 N Template:SeqShopExtSetup Created page with "== Setup when running on your own outside of the SeqShop Workshop == ''This section is specifically for running on your own outside of the SeqShop Workshop.'' <div class="mw-c..."
- 16:09, 3 July 2014 diff hist +20 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Setup when running on your own outside of the SeqShop Workshop
- 14:48, 3 July 2014 diff hist +66 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Setup when running on your own outside of the SeqShop Workshop
- 14:21, 3 July 2014 diff hist +490 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Setup when running on your own outside of the SeqShop Workshop
- 13:57, 3 July 2014 diff hist +2 Template:SeqShopLogin →Login to the seqshop-server Linux Machine
- 13:57, 3 July 2014 diff hist +1,733 SeqShop: Estimates of Genetic Ancestry Practical, June 2014
- 13:21, 3 July 2014 diff hist +30 SeqShop: Estimates of Genetic Ancestry Practical, June 2014 →Step 1: bam --> pileup
- 13:18, 3 July 2014 diff hist -13 SeqShop: Estimates of Genetic Ancestry Practical, June 2014 →Setup when running on your own outside of the SeqShop Workshop
- 12:50, 3 July 2014 diff hist +1,502 SeqShop: Estimates of Genetic Ancestry Practical, June 2014 →Getting started
- 09:08, 1 July 2014 diff hist +3 SeqShop: Genetic Association Analysis Practical, June 2014 →Annotating Variants with EPACTS
- 08:36, 1 July 2014 diff hist +169 SeqShop: Genetic Association Analysis Practical, June 2014 →Single Variant Association Analysis
- 13:47, 30 June 2014 diff hist -1 SeqShop: Genetic Association Analysis Practical, June 2014 →Single Variant Association Analysis
- 11:41, 30 June 2014 diff hist +3 SeqShop: Analysis of Structural Variation Practical, June 2014 →GotCloud Configuration File
- 10:43, 30 June 2014 diff hist +130 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP Genotyping Pipeline
- 10:38, 30 June 2014 diff hist +42 Main Page →Sequence Analysis Tools
- 10:21, 30 June 2014 diff hist +37 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP Metadata Pipeline
- 18:17, 27 June 2014 diff hist +48 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP Genotyping Pipeline
- 15:50, 27 June 2014 diff hist -257 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP Discovery Pipeline
- 11:41, 27 June 2014 diff hist +1,645 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP Discovery Pipeline
- 11:04, 27 June 2014 diff hist +4 SeqShop: Genetic Association Analysis Practical, June 2014 →Preparing Input Files
- 09:39, 27 June 2014 diff hist +206 SeqShop: Analysis of Structural Variation Practical, June 2014 →Reference Files
- 17:20, 26 June 2014 diff hist +43 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP Discovery Pipeline
- 17:03, 26 June 2014 diff hist +12 SeqShop: Analysis of Structural Variation Practical, June 2014 →Running GotCloud/GenomeSTRiP Metadata Pipeline
- 16:37, 26 June 2014 diff hist -254 SeqShop: Analysis of Structural Variation Practical, June 2014
- 15:30, 26 June 2014 diff hist 0 File:IndelNormalize.png Mktrost uploaded a new version of "File:IndelNormalize.png" current
- 15:29, 26 June 2014 diff hist +363 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014 →Normalization
- 15:28, 26 June 2014 diff hist 0 File:IndelNormalize.png Mktrost uploaded a new version of "File:IndelNormalize.png"
- 14:37, 26 June 2014 diff hist +251 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014 →Comparison with other data sets
- 12:04, 26 June 2014 diff hist +2,701 SeqShop: Variant Calling and Filtering for INDELs Practical, June 2014
- 11:10, 26 June 2014 diff hist +777 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Run GotCloud SnpCall
- 11:07, 26 June 2014 diff hist -1 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014
- 10:59, 26 June 2014 diff hist +19 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Did I find interesting variants?
- 10:45, 26 June 2014 diff hist +36 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Running GotCloud Genotype Refinement
- 10:45, 26 June 2014 diff hist +1 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Genotype Refinement Input
- 10:44, 26 June 2014 diff hist +42 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Passing SNPs
- 10:43, 26 June 2014 diff hist +68 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Filtered VCF
- 10:41, 26 June 2014 diff hist +36 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Run GotCloud SnpCall
- 10:23, 26 June 2014 diff hist +209 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014 →Examining GotCloud SnpCall Input files
- 10:08, 26 June 2014 diff hist +1,822 SeqShop: Variant Calling and Filtering for SNPs Practical, June 2014
- 17:29, 25 June 2014 diff hist -141 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Please provide feedback from Day 1
- 17:29, 25 June 2014 diff hist +5 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Accessing BAMs by Position
- 17:26, 25 June 2014 diff hist +2 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Run GotCloud Align
- 17:24, 25 June 2014 diff hist +814 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Run GotCloud Align
- 16:32, 25 June 2014 diff hist 0 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →GotCloud Configuration File
- 16:21, 25 June 2014 diff hist 0 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →GotCloud FASTQ Index File
- 16:04, 25 June 2014 diff hist 0 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Reference Files
- 16:02, 25 June 2014 diff hist +33 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Examining GotCloud Align Input Files
- 15:46, 25 June 2014 diff hist +667 SeqShop: Sequence Mapping and Assembly Practical, June 2014 →Setup when running on your own outside of the SeqShop Workshop
- 15:19, 24 June 2014 diff hist +1,149 SeqShop: Sequence Mapping and Assembly Practical, June 2014
- 15:06, 24 June 2014 diff hist +2 Template:SeqShopLogin
- 15:05, 24 June 2014 diff hist -216 Template:SeqShopLogin
- 15:01, 24 June 2014 diff hist +216 Template:SeqShopLogin
- 11:00, 24 June 2014 diff hist +857 GotCloud: FAQs →GotCloud Frequently Asked Questions (FAQs)
- 14:26, 20 June 2014 diff hist -3 SeqShop: Ancestry On Your Own Genome, June 2014 →Step 2: pileup --> seq
- 14:26, 20 June 2014 diff hist -4 SeqShop: Ancestry On Your Own Genome, June 2014 →Visualizing Ancestry
- 14:24, 20 June 2014 diff hist -3 SeqShop: Ancestry On Your Own Genome, June 2014 →Estimate ancestry
- 14:22, 20 June 2014 diff hist 0 SeqShop: Ancestry On Your Own Genome, June 2014 →Estimate ancestry
- 14:19, 20 June 2014 diff hist -7 SeqShop: Ancestry On Your Own Genome, June 2014 →Step 2: pileup --> seq
- 14:19, 20 June 2014 diff hist +2 SeqShop: Ancestry On Your Own Genome, June 2014 →Step 2: pileup --> seq
- 14:11, 20 June 2014 diff hist +52 SeqShop: Ancestry On Your Own Genome, June 2014 →Setup
- 14:10, 20 June 2014 diff hist -21 SeqShop: Ancestry On Your Own Genome, June 2014 →Step 1: bam --> pileup
- 14:08, 20 June 2014 diff hist +21 SeqShop: Ancestry On Your Own Genome, June 2014 →Step 1: bam --> pileup
- 11:52, 20 June 2014 diff hist +1,092 SeqShop: Ancestry On Your Own Genome, June 2014
- 11:30, 20 June 2014 diff hist +249 SeqShop: Calling Your Own Genome, June 2014 →Exome
- 08:59, 20 June 2014 diff hist +65 SeqShop: Friday - Practicing what we learned, June 2014
- 08:58, 20 June 2014 diff hist +31 SeqShop: Friday - Practicing what we learned, June 2014
- 08:57, 20 June 2014 diff hist 0 N File:RecabGATK.png current
- 08:55, 20 June 2014 diff hist +298 SeqShop: Friday - Practicing what we learned, June 2014
- 08:53, 20 June 2014 diff hist 0 N File:AlignmentPipeline.jpg current
- 08:36, 20 June 2014 diff hist +78 N SeqShop: Friday - Practicing what we learned, June 2014 Created page with "SeqShop: Calling Your Own Genome SeqShop: Ancestry On Your Own Genome"
- 08:35, 20 June 2014 diff hist +118 SeqShop: June 2014
- 06:42, 20 June 2014 diff hist +228 SeqShop: Calling Your Own Genome, June 2014 →Exome
- 06:41, 20 June 2014 diff hist +223 SeqShop: Calling Your Own Genome, June 2014 →Chromosome 20
- 06:37, 20 June 2014 diff hist +443 SeqShop: Calling Your Own Genome, June 2014 →Chromosome 20
- 06:36, 20 June 2014 diff hist +388 SeqShop: Calling Your Own Genome, June 2014 →Exome
- 02:17, 20 June 2014 diff hist +116 SeqShop: Calling Your Own Genome, June 2014 →Exome
- 02:16, 20 June 2014 diff hist -476 SeqShop: Calling Your Own Genome, June 2014 →Run
- 02:16, 20 June 2014 diff hist -134 SeqShop: Calling Your Own Genome, June 2014 →Exome
- 01:32, 20 June 2014 diff hist +62 SeqShop: Calling Your Own Genome, June 2014 →Setup
- 01:31, 20 June 2014 diff hist +565 SeqShop: Calling Your Own Genome, June 2014 →Chromosome 20
- 01:27, 20 June 2014 diff hist +1,237 SeqShop: Calling Your Own Genome, June 2014
- 18:51, 19 June 2014 diff hist +465 SeqShop: Calling Your Own Genome, June 2014 →Run
- 16:32, 19 June 2014 diff hist +1 SeqShop: Ancestry On Your Own Genome, June 2014 →Estimate ancestry
- 16:19, 19 June 2014 diff hist +3 SeqShop: Ancestry On Your Own Genome, June 2014 →Setup
- 16:16, 19 June 2014 diff hist -8 SeqShop: Ancestry On Your Own Genome, June 2014 →Setup
- 16:10, 19 June 2014 diff hist +66 SeqShop: June 2014
- 16:07, 19 June 2014 diff hist +297 SeqShop: Genetic Association Analysis Practical, June 2014
- 16:04, 19 June 2014 diff hist +6 SeqShop: June 2014
- 16:02, 19 June 2014 diff hist +49 SeqShop: June 2014
- 15:08, 19 June 2014 diff hist +1,052 N SeqShop: Calling Your Own Genome, June 2014 Created page with "{{SeqShopLogin}} == Setup == Set these values. If you used a different path for any of these, please update here. Also, be sure to specify your sample name instead of Sampl..."
- 15:08, 19 June 2014 diff hist -3 SeqShop: Ancestry On Your Own Genome, June 2014 →Estimate ancestry
- 14:14, 19 June 2014 diff hist +654 SeqShop: Ancestry On Your Own Genome, June 2014
- 13:09, 19 June 2014 diff hist +10 SeqShop: Ancestry On Your Own Genome, June 2014 →Step 2: pileup --> seq
- 12:39, 19 June 2014 diff hist -26 SeqShop: Ancestry On Your Own Genome, June 2014 →Step 2: pileup --> seq
- 12:08, 19 June 2014 diff hist +916 N SeqShop: Ancestry On Your Own Genome, June 2014 Created page with "{{SeqShopLogin}} == Setup == Set these values. If you used a different path for any of these, please update here. Also, be sure to specify your sample name instead of Sampl..."
- 10:36, 19 June 2014 diff hist +18 SeqShop: Estimates of Genetic Ancestry Practical, June 2014
- 12:08, 18 June 2014 diff hist +35 SeqShop: June 2014
- 12:07, 18 June 2014 diff hist 0 N File:Worshop2014-ancestry.pdf current
- 10:50, 18 June 2014 diff hist +273 SeqShop: Aligning Your Own Genome, June 2014 →Using a Script
- 10:50, 18 June 2014 diff hist 0 N File:BuildIndex.png current
- 10:28, 18 June 2014 diff hist +1,193 SeqShop: Aligning Your Own Genome, June 2014 →Generating the index file listing your FASTQs
- 10:05, 18 June 2014 diff hist +1,274 SeqShop: Aligning Your Own Genome, June 2014
- 02:39, 18 June 2014 diff hist +214 SeqShop: Aligning Your Own Genome, June 2014
- 02:24, 18 June 2014 diff hist +76 SeqShop: Aligning Your Own Genome, June 2014 →Run your Alignment
- 02:02, 18 June 2014 diff hist +340 SeqShop: Aligning Your Own Genome, June 2014
- 01:37, 18 June 2014 diff hist +332 SeqShop: Aligning Your Own Genome, June 2014 →Screen
- 01:33, 18 June 2014 diff hist +1,266 SeqShop: Aligning Your Own Genome, June 2014 →Create your GotCloud Configuration File
- 01:29, 18 June 2014 diff hist 0 File:Gc2xconf.png Mktrost uploaded a new version of "File:Gc2xconf.png" current
- 01:14, 18 June 2014 diff hist 0 N File:Screen.png current
- 01:10, 18 June 2014 diff hist +982 SeqShop: Aligning Your Own Genome, June 2014 →Copy to Text File
- 01:05, 18 June 2014 diff hist 0 File:Gc2xconf.png Mktrost uploaded a new version of "File:Gc2xconf.png"
- 01:03, 18 June 2014 diff hist 0 N File:Gc2xconf.png
- 00:41, 18 June 2014 diff hist -7 SeqShop: Aligning Your Own Genome, June 2014 →Header Row
- 00:39, 18 June 2014 diff hist +161 SeqShop: Aligning Your Own Genome, June 2014 →Generating the index file listing your FASTQs
- 00:15, 18 June 2014 diff hist -1 SeqShop: Aligning Your Own Genome, June 2014 →PLATFORM =
- 00:11, 18 June 2014 diff hist 0 File:Analysis of SV.pdf Mktrost uploaded a new version of "File:Analysis of SV.pdf" current
- 23:54, 17 June 2014 diff hist +5,345 SeqShop: Aligning Your Own Genome, June 2014
- 23:46, 17 June 2014 diff hist 0 N File:HdrSheetDone.png current
- 23:43, 17 June 2014 diff hist 0 File:HdrSheetRGannotated.png Mktrost uploaded a new version of "File:HdrSheetRGannotated.png" current
- 23:39, 17 June 2014 diff hist 0 N File:HdrSheetRGannotated.png
- 23:16, 17 June 2014 diff hist 0 N File:HdrSheetFQ2 2.png current
- 23:13, 17 June 2014 diff hist 0 N File:HdrSheetFQ2 1.png current
- 23:08, 17 June 2014 diff hist 0 N File:HdrSheetMN1.png current
- 23:06, 17 June 2014 diff hist 0 N File:HdrSheetFQ1.png current
- 23:05, 17 June 2014 diff hist 0 N File:HighlightedFASTQs.png current
- 22:54, 17 June 2014 diff hist 0 N File:FastqHdrMN.png current
- 22:51, 17 June 2014 diff hist 0 N File:HdrRow.png current
- 22:36, 17 June 2014 diff hist 0 N File:FastqlistAnnotated.png current
- 22:12, 17 June 2014 diff hist 0 N File:Fastqlist.png current
- 21:56, 17 June 2014 diff hist 0 N File:RunDir.png current
- 21:42, 17 June 2014 diff hist +1,011 N Screen Commands Created page with "Use screen to save a session so that your commands continue to run even when you log off. You really only need to use the top 3 commands. The rest are "advanced" usage. {| ..."
- 21:39, 17 June 2014 diff hist +73 Introduction to new students →Unix current