User contributions
From Genome Analysis Wiki
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- 23:01, 19 April 2019 (diff | hist) . . (+10) . . BamUtil: recab (→Required Generic Parameters) (current)
- 23:00, 19 April 2019 (diff | hist) . . (+31) . . BamUtil: recab (→Handling Recalibration/Implementation Notes)
- 22:31, 8 April 2019 (diff | hist) . . (+10) . . BamUtil: dedup (→Required Parameters) (current)
- 22:31, 8 April 2019 (diff | hist) . . (+6) . . Template:InBAMInputFile (current)
- 22:30, 8 April 2019 (diff | hist) . . (+1) . . Template:InBAMInputFile
- 22:29, 8 April 2019 (diff | hist) . . (+42) . . Template:InBAMInputFile
- 22:19, 8 April 2019 (diff | hist) . . (+26) . . Template:InBAMInputFile
- 22:17, 8 April 2019 (diff | hist) . . (+120) . . Template:InBAMInputFile
- 22:03, 8 April 2019 (diff | hist) . . (+72) . . BamUtil: dedup (→Overview of the dedup function of bamUtil)
- 22:02, 8 April 2019 (diff | hist) . . (+76) . . BamUtil: dedup (→Implementation Notes)
- 21:46, 30 July 2018 (diff | hist) . . (+354) . . BamUtil
- 00:20, 13 November 2017 (diff | hist) . . (+264) . . LibStatGen Troubleshooting (→Possible Compile Errors) (current)
- 00:18, 13 November 2017 (diff | hist) . . (+273) . . Template:ToolGitRepo (current)
- 00:04, 13 November 2017 (diff | hist) . . (+913) . . LibStatGen Download (→Official Releases) (current)
- 23:55, 12 November 2017 (diff | hist) . . (+235) . . BamUtil (→Full Release (includes libStatGen))
- 23:49, 12 November 2017 (diff | hist) . . (+762) . . BamUtil (→Release of just BamUtil (does not include libStatGen))
- 23:28, 12 November 2017 (diff | hist) . . (+13) . . BamUtil: trimBam (→Soft Clipping Notes (--clip/-c)) (current)
- 23:28, 12 November 2017 (diff | hist) . . (+26) . . BamUtil: trimBam (→Soft Clipping Notes (--clip/-c))
- 15:29, 9 September 2017 (diff | hist) . . (0) . . VerifyBamID (→Command Line Options) (current)
- 15:59, 24 August 2017 (diff | hist) . . (+11) . . BamUtil: stats (→BaseQC (--pBaseQC and --cBaseQC and --baseSum)) (current)
- 15:58, 24 August 2017 (diff | hist) . . (+29) . . BamUtil: stats (→BaseQC (--pBaseQC and --cBaseQC and --baseSum))
- 15:57, 24 August 2017 (diff | hist) . . (+479) . . BamUtil: stats (→Parameters)
- 04:20, 14 June 2017 (diff | hist) . . (+30) . . VerifyBamID (→Column information in the output files)
- 15:42, 4 January 2017 (diff | hist) . . (+261) . . Nm User talk:Gzajac (Welcome!) (current)
- 15:42, 4 January 2017 (diff | hist) . . (+334) . . Nm User:Gzajac (Creating user page for new user.) (current)
- 22:30, 14 April 2016 (diff | hist) . . (+36) . . BamUtil: dedup (→Implementation Notes)
- 01:45, 6 March 2016 (diff | hist) . . (+26) . . BamUtil: gapInfo (→Rules) (current)
- 01:10, 6 March 2016 (diff | hist) . . (+1,246) . . BamUtil: recab (→Parameters)
- 01:07, 6 March 2016 (diff | hist) . . (-22) . . BamUtil: recab (→Skip Records with any of the Specified Flags (--buildExcludeFlags, --applyExcludeFlags))
- 00:45, 6 March 2016 (diff | hist) . . (-109) . . BamUtil: dedup (→Skip Records with any of the Specified Flags (--excludeFlags))
- 00:20, 6 March 2016 (diff | hist) . . (+143) . . BamUtil: dedup (→Skip Records with any of the Specified Flags (--excludeFlags))
- 00:15, 6 March 2016 (diff | hist) . . (+43) . . BamUtil: dedup (→Parameters)
- 00:01, 6 March 2016 (diff | hist) . . (+95) . . BamUtil: clipOverlap (→ASSUMPTIONS/RESTRICTIONS) (current)
- 00:00, 6 March 2016 (diff | hist) . . (0) . . BamUtil: clipOverlap (→Parameters)
- 23:59, 5 March 2016 (diff | hist) . . (-29) . . BamUtil: clipOverlap (→Skip Records with any of the Specified Flags (--excludeFlags))
- 23:53, 5 March 2016 (diff | hist) . . (+1,936) . . BamUtil: bam2FastQ (→Parameters) (current)
- 23:36, 5 March 2016 (diff | hist) . . (+102) . . BamUtil: bam2FastQ (→Usage)
- 23:35, 5 March 2016 (diff | hist) . . (-100) . . BamUtil: bam2FastQ (→Overview of the bam2FastQ function of bamUtil)
- 18:39, 28 January 2016 (diff | hist) . . (+257) . . GotCloud: Alignment Pipeline (→Optional Configurable Settings) (current)
- 23:00, 28 October 2015 (diff | hist) . . (-136) . . Releasing GotCloud
- 15:00, 19 August 2015 (diff | hist) . . (+261) . . Nm User talk:Pjvh (Welcome!) (current)
- 15:00, 19 August 2015 (diff | hist) . . (+445) . . Nm User:Pjvh (Creating user page for new user.)
- 14:56, 30 June 2015 (diff | hist) . . (+78) . . GotCloud: Creating a New Pipeline (→Example Pipelines Created)
- 14:51, 30 June 2015 (diff | hist) . . (+163) . . GotCloud: Creating a New Pipeline (→Overall Pipeline Definition)
- 14:50, 30 June 2015 (diff | hist) . . (0) . . GotCloud: Creating a New Pipeline (→Defining a New Pipeline)
- 14:50, 30 June 2015 (diff | hist) . . (+2,508) . . GotCloud: Creating a New Pipeline
- 14:12, 30 June 2015 (diff | hist) . . (+3,041) . . GotCloud: Creating a New Pipeline (→Configure Each Step)
- 13:08, 30 June 2015 (diff | hist) . . (+1,180) . . GotCloud: Creating a New Pipeline (→Defining a New Pipeline)
- 10:54, 23 June 2015 (diff | hist) . . (+921) . . GotCloud: FAQs (→Variant Calling Pipeline FAQs) (current)
- 12:52, 26 May 2015 (diff | hist) . . (+473) . . GotCloud
- 12:10, 22 May 2015 (diff | hist) . . (-12) . . SeqShop: Calling Your Own Genome, May 2015 (→Annotation / Lookup against dbSNP) (current)
- 10:49, 22 May 2015 (diff | hist) . . (+143) . . SeqShop: Calling Your Own Genome, May 2015 (→Friday)
- 10:40, 22 May 2015 (diff | hist) . . (+30) . . SeqShop: May 2015 (current)
- 10:40, 22 May 2015 (diff | hist) . . (0) . . N File:2015.05 - Workshop Closing.pdf (current)
- 09:44, 22 May 2015 (diff | hist) . . (-304) . . SeqShop: Calling Your Own Genome, May 2015
- 16:29, 21 May 2015 (diff | hist) . . (+12) . . SeqShop: Calling Your Own Genome, May 2015 (→FEEDBACK!)
- 14:57, 21 May 2015 (diff | hist) . . (+18) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Visualizing Ancestry) (current)
- 14:56, 21 May 2015 (diff | hist) . . (+6) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Estimate ancestry)
- 14:52, 21 May 2015 (diff | hist) . . (+1) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Visualizing Ancestry)
- 14:26, 21 May 2015 (diff | hist) . . (+30) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Estimate ancestry)
- 14:25, 21 May 2015 (diff | hist) . . (+5) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Visualizing Ancestry)
- 14:25, 21 May 2015 (diff | hist) . . (+10) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Estimate ancestry)
- 14:24, 21 May 2015 (diff | hist) . . (+5) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Step 2: pileup --> seq)
- 14:24, 21 May 2015 (diff | hist) . . (+6) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Setup your terminal)
- 14:22, 21 May 2015 (diff | hist) . . (-34) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Step 1: bam --> pileup)
- 14:15, 21 May 2015 (diff | hist) . . (0) . . SeqShop: Association Analysis, May 2015 (→Download & Build EPACTS) (current)
- 14:14, 21 May 2015 (diff | hist) . . (+14) . . SeqShop: Association Analysis, May 2015 (→Setup)
- 14:13, 21 May 2015 (diff | hist) . . (+218) . . SeqShop: Association Analysis, May 2015 (→Setup)
- 14:04, 21 May 2015 (diff | hist) . . (+340) . . SeqShop: Association Analysis, May 2015
- 10:22, 21 May 2015 (diff | hist) . . (+5) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Step 1: bam --> pileup)
- 09:06, 21 May 2015 (diff | hist) . . (+227) . . SeqShop: Estimates of Genetic Ancestry Practical, May 2015 (→Return to Workshop Wiki Page)
- 23:02, 20 May 2015 (diff | hist) . . (-38) . . SeqShop: May 2015
- 23:01, 20 May 2015 (diff | hist) . . (0) . . N File:Stratification.pptx (current)
- 11:43, 20 May 2015 (diff | hist) . . (+1) . . SeqShop: May 2015
- 11:43, 20 May 2015 (diff | hist) . . (0) . . N File:Seqshop genetic association analysis 150521.pptx (current)
- 11:23, 20 May 2015 (diff | hist) . . (+84) . . SeqShop: May 2015
- 11:22, 20 May 2015 (diff | hist) . . (+137) . . SeqShop: Variant Calling and Filtering for INDELs Practical, May 2015 (→Return to Workshop Wiki Page) (current)
- 11:19, 20 May 2015 (diff | hist) . . (-1,846) . . SeqShop: Calling Your Own Genome, May 2015
- 11:11, 20 May 2015 (diff | hist) . . (+39) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Setup your terminal)
- 11:09, 20 May 2015 (diff | hist) . . (+4) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Setup your terminal)
- 11:09, 20 May 2015 (diff | hist) . . (+12) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Run)
- 11:07, 20 May 2015 (diff | hist) . . (-24) . . SeqShop: Ancestry On Your Own Genome, May 2015 (→Setup your terminal)
- 10:23, 20 May 2015 (diff | hist) . . (+16) . . SeqShop: May 2015
- 10:16, 20 May 2015 (diff | hist) . . (0) . . N File:2015.05 - Workshop Intro.pdf (current)
- 10:01, 20 May 2015 (diff | hist) . . (-12) . . SeqShop: Variant Calling and Filtering for INDELs Practical, May 2015 (→Setup)
- 10:00, 20 May 2015 (diff | hist) . . (0) . . SeqShop: Variant Calling and Filtering for INDELs Practical, May 2015 (→Running GotCloud Indel)
- 09:48, 20 May 2015 (diff | hist) . . (-10) . . SeqShop: May 2015
- 09:48, 20 May 2015 (diff | hist) . . (0) . . N File:Seqshop 2015 non-SNP variation.pdf (current)
- 16:13, 19 May 2015 (diff | hist) . . (-3) . . SeqShop: Analysis of Structural Variation Practical, May 2015 (→Running GotCloud/GenomeSTRiP Metadata Pipeline)
- 16:08, 19 May 2015 (diff | hist) . . (+33) . . SeqShop: Analysis of Structural Variation Practical, May 2015 (→Reference Files)
- 16:08, 19 May 2015 (diff | hist) . . (+60) . . SeqShop: Analysis of Structural Variation Practical, May 2015 (→Reference Files)
- 16:07, 19 May 2015 (diff | hist) . . (+112) . . SeqShop: Analysis of Structural Variation Practical, May 2015 (→Reference Files)
- 15:37, 19 May 2015 (diff | hist) . . (+66) . . SeqShop: Variant Calling and Filtering for SNPs Practical, May 2015 (→Genotype Refinement Output)
- 15:05, 19 May 2015 (diff | hist) . . (-1,533) . . SeqShop: Association Analysis, May 2015
- 14:58, 19 May 2015 (diff | hist) . . (-2,032) . . SeqShop: Estimates of Genetic Ancestry Practical, May 2015
- 14:03, 19 May 2015 (diff | hist) . . (-901) . . SeqShop: Variant Calling and Filtering for INDELs Practical, May 2015 (→Comparison with other data sets)
- 14:02, 19 May 2015 (diff | hist) . . (+218) . . Nm User:Carol Yuan (Creating user page for new user.) (current)
- 14:02, 19 May 2015 (diff | hist) . . (+258) . . Nm User talk:Carol Yuan (Welcome!) (current)
- 13:42, 19 May 2015 (diff | hist) . . (-1) . . SeqShop: Variant Calling and Filtering for INDELs Practical, May 2015 (→Setup)
- 13:42, 19 May 2015 (diff | hist) . . (+31) . . SeqShop: Variant Calling and Filtering for SNPs Practical, May 2015 (→Setup)
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