Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / cbg-ethz/ngs-pipe issues and pull requests

#36 - memory

Issue - State: open - Opened by luantunez almost 4 years ago

#35 - No example for DNA available

Issue - State: open - Opened by Mehnen over 4 years ago - 1 comment

#34 - RuleException in wes example

Issue - State: closed - Opened by tylmoss over 5 years ago - 1 comment

#33 - Facets fix output

Pull Request - State: closed - Opened by frSinger almost 6 years ago

#32 - Function emcncf2 is deprectated. Use emcncf instead. Additionally, th…

Pull Request - State: closed - Opened by frSinger about 6 years ago - 1 comment

#31 - config json file

Issue - State: open - Opened by pl618 about 6 years ago

#30 - Added script necessary to run vcf reference header update. Updated py…

Pull Request - State: closed - Opened by frSinger about 6 years ago

#29 - Adapted bedtools rules calls for consistency.

Pull Request - State: closed - Opened by frSinger about 6 years ago

#28 - [FIX] Bug fix in the createreferenceheader rule.

Pull Request - State: closed - Opened by ligrob about 6 years ago

#27 - [FIX] Integrated concatenation output folder to fix varscan output fi…

Pull Request - State: closed - Opened by frSinger about 6 years ago

#26 - In Example -> Provided cores: 1

Issue - State: closed - Opened by wehrleju over 6 years ago - 2 comments

#25 - No example for WGS data

Issue - State: open - Opened by readbio over 6 years ago - 1 comment

#24 - Fixed bugs in freebayes related rules and updated config file

Pull Request - State: closed - Opened by frSinger over 6 years ago

#23 - [INTERNAL] Removed unnecessary directory causing snakemake problems o…

Pull Request - State: closed - Opened by singerj over 6 years ago

#22 - Fix trimmomatic

Pull Request - State: closed - Opened by singerj over 6 years ago

#21 - Fix varscan

Pull Request - State: closed - Opened by singerj over 6 years ago

#20 - Update wes example

Pull Request - State: closed - Opened by singerj over 6 years ago

#19 - [FEATURE] Added Freebayes as a variant caller.

Pull Request - State: closed - Opened by ligrob over 6 years ago

#18 - [FIX] Added appropriate wildcards in the log and in the benchmarking files of two…

Pull Request - State: closed - Opened by ligrob over 6 years ago - 1 comment

#17 - Added sample names to mutect1 variant call rule.

Pull Request - State: closed - Opened by frSinger over 6 years ago

#16 - [FEATURE] Added picard rule cleanSam.

Pull Request - State: closed - Opened by frSinger over 6 years ago

#15 - Fix annotation names

Pull Request - State: closed - Opened by frSinger over 6 years ago

#14 - [FIX] Added default folder SOMATICSEQOUT

Pull Request - State: closed - Opened by frSinger over 6 years ago

#13 - [FIX] Fixed incorrect name of strelka1 folder in GATK variant combine…

Pull Request - State: closed - Opened by frSinger over 6 years ago

#12 - [FIX] Fixed bugs in input and output files of variant call filter scr…

Pull Request - State: closed - Opened by frSinger over 6 years ago

#11 - [FIX] Fixed the getBamsForRealign function.

Pull Request - State: closed - Opened by frSinger over 6 years ago

#10 - [FEATURE] Integrated the variant caller strelka2. Updated GATK varian…

Pull Request - State: closed - Opened by frSinger almost 7 years ago

#9 - [FIX] Changed VarscanSomatic rule to agree with the new reference Hea…

Pull Request - State: closed - Opened by ligrob almost 7 years ago

#8 - [FIX] Changed -nt to -ntc option in first_pass_create_recalibration t…

Pull Request - State: closed - Opened by ligrob almost 7 years ago - 1 comment

#7 - Hotfix

Pull Request - State: closed - Opened by lgrob-nex about 7 years ago

#6 - Fix in config file and in qualimap_PDF

Pull Request - State: closed - Opened by lgrob-nex about 7 years ago

#5 - [FIX] Added missing pointer to config tools section in the cliptrim r…

Pull Request - State: closed - Opened by lgrob-nex about 7 years ago

#4 - Error in "Qualimap" when running the file "**run_analysis_locally.sh**"

Issue - State: closed - Opened by AkankshaFarswan over 7 years ago - 12 comments

#2 - Merging changes tested in Develop

Pull Request - State: closed - Opened by singerj over 7 years ago

#1 - module 'logging' has no attribute 'StreamHandler'

Issue - State: closed - Opened by Morteza-M-Saber over 7 years ago - 2 comments