User contributions
From Genome Analysis Wiki
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- 12:26, 19 May 2015 (diff | hist) . . (-715) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Setup your terminal)
- 12:25, 19 May 2015 (diff | hist) . . (+13) . . SeqShop: Calling Your Own Genome, May 2015 (→Thursday)
- 12:23, 19 May 2015 (diff | hist) . . (-652) . . SeqShop: Calling Your Own Genome, May 2015 (→Thursday)
- 10:37, 19 May 2015 (diff | hist) . . (-1,137) . . SeqShop: Variant Calling and Filtering for INDELs Practical, May 2015
- 09:57, 19 May 2015 (diff | hist) . . (+138) . . SeqShop: Calling Your Own Genome, May 2015 (→Log Out)
- 09:56, 19 May 2015 (diff | hist) . . (+14) . . SeqShop: Calling Your Own Genome, May 2015 (→Running INDEL)
- 09:54, 19 May 2015 (diff | hist) . . (-47) . . SeqShop: Calling Your Own Genome, May 2015 (→Configuring Indel)
- 23:31, 18 May 2015 (diff | hist) . . (+1) . . SeqShop: Calling Your Own Genome, May 2015 (→FEEDBACK!)
- 23:31, 18 May 2015 (diff | hist) . . (+140) . . SeqShop: Calling Your Own Genome, May 2015 (→Log Out)
- 23:28, 18 May 2015 (diff | hist) . . (-16) . . SeqShop: Calling Your Own Genome, May 2015 (→Wednesday)
- 23:27, 18 May 2015 (diff | hist) . . (-8) . . SeqShop: Analysis of Structural Variation Practical, May 2015 (→Running GotCloud/GenomeSTRiP 3rd-party Site Genotyping/Filtering Pipeline)
- 23:25, 18 May 2015 (diff | hist) . . (+25) . . SeqShop: Calling Your Own Genome, May 2015 (→Running SNP Calling)
- 23:25, 18 May 2015 (diff | hist) . . (-1,601) . . SeqShop: Calling Your Own Genome, May 2015 (→Start SNP Calling)
- 23:19, 18 May 2015 (diff | hist) . . (-3) . . SeqShop: Analysis of Structural Variation Practical, May 2015 (→Running GotCloud/GenomeSTRiP Genotyping Pipeline)
- 23:18, 18 May 2015 (diff | hist) . . (-41) . . SeqShop: Analysis of Structural Variation Practical, May 2015 (→Running GotCloud/GenomeSTRiP Discovery Pipeline)
- 23:11, 18 May 2015 (diff | hist) . . (-13) . . SeqShop: Analysis of Structural Variation Practical, May 2015 (→Setup)
- 23:11, 18 May 2015 (diff | hist) . . (+13) . . SeqShop: Analysis of Structural Variation Practical, May 2015 (→Setup)
- 23:07, 18 May 2015 (diff | hist) . . (-1,048) . . SeqShop: Analysis of Structural Variation Practical, May 2015
- 22:59, 18 May 2015 (diff | hist) . . (0) . . SeqShop: Variant Calling and Filtering for SNPs Practical, May 2015 (→Running GotCloud Genotype Refinement)
- 22:57, 18 May 2015 (diff | hist) . . (0) . . SeqShop: Variant Calling and Filtering for SNPs Practical, May 2015 (→Run GotCloud SnpCall)
- 22:48, 18 May 2015 (diff | hist) . . (+48) . . SeqShop: Calling Your Own Genome, May 2015 (→Setup Variables)
- 22:47, 18 May 2015 (diff | hist) . . (0) . . SeqShop: Calling Your Own Genome, May 2015
- 22:47, 18 May 2015 (diff | hist) . . (-259) . . SeqShop: Calling Your Own Genome, May 2015 (→Tuesday - Start INDEL Calling)
- 22:12, 18 May 2015 (diff | hist) . . (-433) . . SeqShop: Calling Your Own Genome, May 2015 (→Need a BAM Index File?)
- 11:34, 18 May 2015 (diff | hist) . . (-68) . . SeqShop: Aligning Your Own Genome, May 2015 (current)
- 17:19, 17 May 2015 (diff | hist) . . (-1,185) . . SeqShop: Variant Calling and Filtering for SNPs Practical, May 2015
- 17:04, 17 May 2015 (diff | hist) . . (-58) . . SeqShop: May 2015
- 17:02, 17 May 2015 (diff | hist) . . (0) . . N File:Mapping and assembly May2015.pdf (current)
- 17:02, 17 May 2015 (diff | hist) . . (0) . . N File:Analysis of SV May2015.pdf (current)
- 17:00, 17 May 2015 (diff | hist) . . (0) . . File:Mapping and assembly.pdf (Mktrost uploaded a new version of "File:Mapping and assembly.pdf": Reverted to version as of 13:19, 16 June 2014) (current)
- 16:58, 17 May 2015 (diff | hist) . . (0) . . File:Mapping and assembly.pdf (Mktrost uploaded a new version of "File:Mapping and assembly.pdf")
- 16:57, 17 May 2015 (diff | hist) . . (+13) . . SeqShop: Aligning Your Own Genome, May 2015 (→Recalibration Comparison)
- 16:56, 17 May 2015 (diff | hist) . . (+1) . . SeqShop: Aligning Your Own Genome, May 2015
- 16:54, 17 May 2015 (diff | hist) . . (-57) . . Template:SeqShopLoginSubMachine (→Login to the seqshop Machine) (current)
- 16:32, 17 May 2015 (diff | hist) . . (0) . . SeqShop: Sequence Mapping and Assembly Practical, May 2015 (→Setup)
- 16:31, 17 May 2015 (diff | hist) . . (-666) . . SeqShop: Sequence Mapping and Assembly Practical, May 2015
- 16:18, 17 May 2015 (diff | hist) . . (+9) . . Template:SeqShopLogin (current)
- 16:18, 17 May 2015 (diff | hist) . . (+419) . . N Template:SeqShopLoginSubMachine (Created page with "=== Login to the seqshop Machine === So you can each run multiple jobs at once, we will have you run on 4 different machines within our seqshop setup. * You can only access th...")
- 16:17, 17 May 2015 (diff | hist) . . (-2,462) . . Template:SeqShopLogin (Replaced content with "{{SeqShopLoginA}} {{SeqShopLoginB}}")
- 16:16, 17 May 2015 (diff | hist) . . (+2,076) . . N Template:SeqShopLoginA (Created page with "=== Login to the seqshop-server Linux Machine === <div class="mw-collapsible" style="width:600px"> '' This section will appear redundantly in each session. If you are already ...") (current)
- 15:58, 17 May 2015 (diff | hist) . . (0) . . N File:May2015 SeqShop - GotCloud indel.pdf (current)
- 15:58, 17 May 2015 (diff | hist) . . (0) . . SeqShop: Variant Calling and Filtering for INDELs Practical, May 2015 (→Introduction)
- 15:57, 17 May 2015 (diff | hist) . . (0) . . SeqShop: Variant Calling and Filtering for SNPs Practical, May 2015 (→Introduction)
- 15:57, 17 May 2015 (diff | hist) . . (0) . . N File:May2015 SeqShop - GotCloud snpcall.pdf (current)
- 15:35, 17 May 2015 (diff | hist) . . (0) . . SeqShop: Aligning Your Own Genome, May 2015 (→FEEDBACK!)
- 15:25, 17 May 2015 (diff | hist) . . (0) . . N File:May2015 SeqShop - GotCloud Align.pdf (current)
- 15:24, 17 May 2015 (diff | hist) . . (0) . . SeqShop: Sequence Mapping and Assembly Practical, May 2015 (→Introduction)
- 15:24, 17 May 2015 (diff | hist) . . (0) . . SeqShop: Sequence Mapping and Assembly Practical, May 2015
- 15:21, 17 May 2015 (diff | hist) . . (-5) . . SeqShop: Sequence Mapping and Assembly Practical (Redirected page to SeqShop: Sequence Mapping and Assembly Practical, May 2015) (current)
- 15:19, 17 May 2015 (diff | hist) . . (0) . . File:May2015 SeqShop - Linux.pdf (Mktrost uploaded a new version of "File:May2015 SeqShop - Linux.pdf") (current)
- 15:16, 17 May 2015 (diff | hist) . . (0) . . N File:May2015 SeqShop - Linux.pdf
- 16:35, 15 May 2015 (diff | hist) . . (-4) . . SeqShop: Sequence Mapping and Assembly Practical, December 2014 (→Download the example data) (current)
- 16:33, 15 May 2015 (diff | hist) . . (0) . . SeqShop: Sequence Mapping and Assembly Practical, December 2014
- 12:17, 14 May 2015 (diff | hist) . . (+447) . . GotCloud: Versions (→Version 1.16 (Full Release on 2/25/2015)) (current)
- 12:00, 14 May 2015 (diff | hist) . . (0) . . GotCloud: Genetic Reference and Resource Files (→DBSNP VCF File) (current)
- 10:15, 14 May 2015 (diff | hist) . . (0) . . SeqShop: Sequence Mapping and Assembly Practical, May 2015 (→Download & Build GotCloud)
- 18:11, 12 March 2015 (diff | hist) . . (+191) . . BamUtil: clipOverlap (→Overview of the clipOverlap function of bamUtil)
- 18:09, 12 March 2015 (diff | hist) . . (+92) . . BamUtil: clipOverlap (→Parameters)
- 18:09, 12 March 2015 (diff | hist) . . (+406) . . BamUtil: clipOverlap (→Skip Records with any of the Specified Flags (--excludeFlags))
- 15:04, 12 March 2015 (diff | hist) . . (+427) . . BamUtil: trimBam
- 14:51, 12 March 2015 (diff | hist) . . (+247) . . BamUtil: trimBam (→Usage)
- 13:52, 9 March 2015 (diff | hist) . . (+820) . . GotCloud: Creating a New Pipeline
- 13:04, 9 March 2015 (diff | hist) . . (+106) . . GotCloud (→Running GotCloud Software)
- 11:36, 9 March 2015 (diff | hist) . . (-3) . . BamUtil: trimBam (→Optional parameters)
- 11:08, 9 March 2015 (diff | hist) . . (+680) . . BamUtil: trimBam (→Parameters)
- 11:05, 9 March 2015 (diff | hist) . . (+604) . . BamUtil: trimBam (→Usage)
- 11:03, 9 March 2015 (diff | hist) . . (+79) . . BamUtil: trimBam (→Overview of the trimBam function of bamUtil)
- 11:02, 9 March 2015 (diff | hist) . . (+23) . . Template:BamUtilPrograms (current)
- 14:23, 6 March 2015 (diff | hist) . . (+1,207) . . GotCloud: Variant Calling Pipeline (→Running)
- 16:39, 3 March 2015 (diff | hist) . . (+1,753) . . GotCloud: Creating a New Pipeline (→Creating a New BAM Processing Pipeline)
- 10:50, 2 March 2015 (diff | hist) . . (+925) . . GotCloud: FAQs (→Variant Calling Pipeline FAQs)
- 16:49, 26 February 2015 (diff | hist) . . (+1,918) . . GotCloud: FAQs (→Compiling FAQs)
- 16:38, 26 February 2015 (diff | hist) . . (0) . . GotCloud: FAQs (→Compiling FAQs)
- 16:38, 26 February 2015 (diff | hist) . . (+1,276) . . GotCloud: FAQs (→Compiling FAQs)
- 16:30, 26 February 2015 (diff | hist) . . (+528) . . GotCloud: FAQs (→Version Problems)
- 15:15, 26 February 2015 (diff | hist) . . (+1) . . Releasing GotCloud
- 15:14, 26 February 2015 (diff | hist) . . (+539) . . Releasing GotCloud
- 14:58, 26 February 2015 (diff | hist) . . (+101) . . GotCloud: Versions
- 14:48, 26 February 2015 (diff | hist) . . (+1,058) . . GotCloud: Versions (→Version 1.16 (Full Release on 2/25/2015))
- 14:18, 26 February 2015 (diff | hist) . . (+81) . . GotCloud: Genetic Reference and Resource Files (→Downloadable Reference and Resource Files)
- 14:11, 26 February 2015 (diff | hist) . . (+329) . . GotCloud: Alignment Pipeline (→Recommended Settings)
- 18:39, 25 February 2015 (diff | hist) . . (+65) . . GotCloud: Versions
- 18:28, 25 February 2015 (diff | hist) . . (-468) . . Releasing GotCloud
- 18:03, 25 February 2015 (diff | hist) . . (+1) . . GotCloud (→UMich Development/Release How-To Notes)
- 18:03, 25 February 2015 (diff | hist) . . (0) . . m Releasing GotCloud (Mktrost moved page Creating Packages to Releasing GotCloud)
- 18:03, 25 February 2015 (diff | hist) . . (+32) . . N Creating Packages (Mktrost moved page Creating Packages to Releasing GotCloud) (current)
- 11:53, 24 February 2015 (diff | hist) . . (+203) . . GotCloud: Genetic Reference and Resource Files (→Downloadable Reference and Resource Files)
- 14:13, 23 February 2015 (diff | hist) . . (+18) . . GotCloud (→UMich Development/Release How-To Notes)
- 14:11, 23 February 2015 (diff | hist) . . (+27) . . GotCloud (→UMich Development/Release How-To Notes)
- 10:13, 23 February 2015 (diff | hist) . . (+53) . . QPLOT (→Parameters)
- 10:11, 23 February 2015 (diff | hist) . . (+10) . . QPLOT (→Parameters)
- 12:27, 20 February 2015 (diff | hist) . . (+88) . . GotCloud: Creating a New Pipeline
- 12:25, 20 February 2015 (diff | hist) . . (+132) . . N GotCloud: Creating a New Pipeline (Created page with "== Creating a New BAM Processing Pipeline == GotCloud allows you to configure new basic BAM processing pipelines via configuration.")
- 12:17, 20 February 2015 (diff | hist) . . (-3) . . BamUtil (→Full Release (includes libStatGen))
- 12:16, 20 February 2015 (diff | hist) . . (0) . . N File:BamUtilLibStatGen.1.0.13.tgz (current)
- 12:12, 20 February 2015 (diff | hist) . . (+339) . . BamUtil (→Full Release (includes libStatGen))
- 11:43, 20 February 2015 (diff | hist) . . (+741) . . BamUtil (→Release of just BamUtil (does not include libStatGen))
- 11:06, 20 February 2015 (diff | hist) . . (+1,029) . . LibStatGen Download (→Official Releases)
- 16:20, 19 February 2015 (diff | hist) . . (-405) . . LibStatGen Troubleshooting (→Possible Compile Errors)
- 16:06, 19 February 2015 (diff | hist) . . (0) . . C++ Library: libStatGen
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