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Recent Releases of https://github.com/broadinstitute/tag-public

https://github.com/broadinstitute/tag-public - TCap_v2.0.0

What's Changed

  • Adding files for TCap wdl by @MicahR-Y in https://github.com/broadinstitute/TAG-public/pull/65

Full Changelog: https://github.com/broadinstitute/TAG-public/compare/BreaKmerv2.0.1...TCapv2.0.0

- WDL
Published by MicahR-Y over 1 year ago

https://github.com/broadinstitute/tag-public - BreaKmer_v2.0.1

Release a new BreaKmer version that is compatible with TDR BAM and index path.

- WDL
Published by stellaning1120 almost 2 years ago

https://github.com/broadinstitute/tag-public - TAG-Mop_v0.1.1-alpha

@stellaning1120 flagged an issue with the old MOP WDL. I have implanted the change in this release.

What's Changed

  • Bug Fix and Add An Additional Output to Mop WDL by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/58

Full Changelog: https://github.com/broadinstitute/TAG-public/compare/TAG-Mopv0.1.0-alpha...TAG-Mopv0.1.1-alpha

- WDL
Published by yueyaog about 2 years ago

https://github.com/broadinstitute/tag-public - TAG-Mop_v0.1.0-alpha

TAG-Mop initial release.

- WDL
Published by yueyaog about 2 years ago

https://github.com/broadinstitute/tag-public - QUICviz_v0.3.1

- WDL
Published by yueyaog about 2 years ago

https://github.com/broadinstitute/tag-public - DownSampleBam_v2.0.0

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - SVABA_v2.0.0

SVABA!

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - SmartSeq_v2.0.0

SmartSeq

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - Liquid_Biopsy_Duplex_v2.0.0

LiquidBiopsyDuplex

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - LegoPlotter_v2.0.0

Lego Plotter

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - iChor_v2.0.0

iChor

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - Griffin_2.0.0_alpha

Griffin

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - GATK_CNV_Mutect2_v2.0.0-alpha

GATKCNVMutect2_v2.0.0-alpha Not fully working yet.

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - CollectSamError_v2.0.0

CollectSamError

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - CleanUpFailedSubmissions_v2.0.0

CleanUpFailedSubmissions.

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - BreaKmer_v2.0.0

Initial release of BreaKmer. We are introducing versioning of every TAG pipeline.

- WDL
Published by yueyaog over 2 years ago

https://github.com/broadinstitute/tag-public - v1.1.2

What's Changed

  • Update Mutect2 wdl to Reflect Case and Control Names in the Deliverables by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/19
  • GATK4CNV Optional PON Input by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/17
  • Add Interval Check Procedure in Duplex Workflow by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/31
  • Update CNV and M2 to GATK official workflows by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/38
  • Add original HaplotypeCaller wdl from GOTK repo as M2 Subworkflow by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/39
  • Clean Up Terra Failed Submissions by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/37
  • add extra args for flexible memory allocation for Rsem task in SmartSeq wdl by @stellaning1120 in https://github.com/broadinstitute/TAG-public/pull/42
  • Wittyer WDL Output Updates by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/43
  • Update CollectSamErrorMetrics.wdl by @lfleming1022 in https://github.com/broadinstitute/TAG-public/pull/41

New Contributors

  • @lfleming1022 made their first contribution in https://github.com/broadinstitute/TAG-public/pull/41

Full Changelog: https://github.com/broadinstitute/TAG-public/compare/v1.1.1...v1.1.2

- WDL
Published by yueyaog almost 3 years ago

https://github.com/broadinstitute/tag-public - v1.1.1

What's Changed

  • Griffin Pipeline by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/29
  • Downsamplebam by @stellaning1120 in https://github.com/broadinstitute/TAG-public/pull/32
  • prevent empty array input by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/33

Full Changelog: https://github.com/broadinstitute/TAG-public/compare/v1.0.1...v1.1.1

- WDL
Published by yueyaog about 3 years ago

https://github.com/broadinstitute/tag-public - v1.1.0

What's Changed

  • Added validate_wdls.sh by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/22
  • Added execution permission of validate_wdl.sh by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/23
  • Added the recent PR approved changes from TAG repo by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/24
  • Bait set name by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/27
  • adding option to fail task by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/28
  • Update the input JSON for SvABA by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/25
  • Updating M2 to take mem input by @MicahR-Y in https://github.com/broadinstitute/TAG-public/pull/26
  • Adding dev version of checkBaitSetName WDL by @MicahR-Y in https://github.com/broadinstitute/TAG-public/pull/30
  • BenchmarkCNV wdl by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/16

Full Changelog: https://github.com/broadinstitute/TAG-public/compare/v1.0.0...v1.0.1

- WDL
Published by fleharty about 3 years ago

https://github.com/broadinstitute/tag-public - Intial Release of TAG Workflows

What's Changed

  • Benchmark cnv by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/4
  • README.md update by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/5
  • Benchmark cnv by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/6
  • Added GATK4 CNV wdl by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/9
  • Gatk cnv m2 by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/10
  • Adding LegoPlotter WDL plus gitignore file by @MicahR-Y in https://github.com/broadinstitute/TAG-public/pull/11
  • commit of iChor workflow with 2 versions of step1 and 1 version of step2 by @stellaning1120 in https://github.com/broadinstitute/TAG-public/pull/13
  • update CNV json and remove old cnv by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/12
  • First Commit for Liquid Biopsy Analysis Pipeline by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/14
  • BenchmarkCNV: WDL to run wittyer on Trio samples by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/7
  • Adding SV WDLs to TAG-public by @MicahR-Y in https://github.com/broadinstitute/TAG-public/pull/18
  • Clean up by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/21
  • Added Upload plateqcmetrics Function to SmartSeq QC WDL by @yueyaog in https://github.com/broadinstitute/TAG-public/pull/20

Full Changelog: https://github.com/broadinstitute/TAG-public/compare/v0.1.0-alpha...v1.0.0

- WDL
Published by yueyaog over 3 years ago

https://github.com/broadinstitute/tag-public - v0.1.0-alpha

Initial release for ichor.

- WDL
Published by stellaning1120 almost 4 years ago