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  • 35f356dd33 Use BAM files for htseq-count. 1678933962980035821/tmp_refs/heads/master 1678933962980035821/master Hylke C. Donker 2021-03-17 17:06:02 +0100
  • 4b449ded08 Bug fix in trimmomatic paired-end flag. Hylke C. Donker 2021-03-10 13:45:06 +0100
  • 1c42a61e48 Updated htseq-count with extra comments. Hylke C. Donker 2021-02-25 16:59:57 +0100
  • e852072235 Added htseq-count snippet + updated STAR snippet indicating prebuilt genome index. Hylke C. Donker 2021-02-25 12:40:17 +0100
  • 4443b3c2a9 Merge pull request 'Comments to umi deduplication script' (#8) from s3970582/system_genetics:master into master T. Karp 2021-02-23 15:24:45 +0100
  • d4016b44b6 Added comments to umi deduplication TatiKarp 2021-02-23 15:18:35 +0100
  • f58dfdaad6 Merge pull request 'Pulling from system_genetic to my repository' (#1) from GRIAC/system_genetics:master into master T. Karp 2021-02-23 15:08:28 +0100
  • 55658e204f Merge pull request 'Made snippet input- and output files more harmonised.' (#6) from feature/harmonised-steps into master H.C. Donker 2021-02-23 09:17:16 +0100
  • f93596dd87 Made snippet input- and output files more harmonised. Hylke C. Donker 2021-02-22 13:18:18 +0100
  • e3c88c059f added description of general files master Rene Bults 2021-02-22 15:20:41 +0100
  • a2bc313515 Simple snippet on running MultiQC to collate FastQC results M. Berg 2021-02-22 14:52:54 +0100
  • 981a983dd5 Merge pull request 'UMI deduplication script from Victor' (#3) from s3970582/system_genetics:master into master T. Karp 2021-02-15 17:44:30 +0100
  • c05d3f7868 Added description and some comments for UMi deduplication TatiKarp 2021-02-15 17:18:48 +0100
  • 59f1b425b1 Merge pull request 'Small snippet that generates a genome index and aligns the RNAseq reads.' (#2) from step3/star-alignment-snippet into master J.v.N. 2021-02-15 17:09:28 +0100
  • 65d7193848 Merge branch 'master' into step3/star-alignment-snippet J.v.N. 2021-02-15 17:08:31 +0100
  • cba83716c8 Merge pull request 'Trimmomatic update (simplified)' (#5) from P300299/system_genetics:master into master J.v.N. 2021-02-15 17:06:31 +0100
  • 6cf40804c4 adapter comments Jos van Nijnatten 2021-02-15 17:03:34 +0100
  • 51abdcdb26 Trimmomatic update (simplified) Jos van Nijnatten 2021-02-15 16:48:39 +0100
  • e2206cbc39 Merge pull request 'FastQC, Trimming, Overall QC (initial)' (#1) from P300299/system_genetics:master into master J.v.N. 2021-02-15 16:20:20 +0100
  • 4c52527340 Merge branch 'master' into master J.v.N. 2021-02-15 16:18:28 +0100
  • 1110d00e8c added fastQC code snippet (.pl and .sh scripts) Rene Bults 2021-02-15 15:54:21 +0100
  • 170a001729 Count reads in X and Y chromosome. Jos van Nijnatten 2021-02-15 12:54:31 +0100
  • 4b61c099f6 Update 'rnaseq/step2_trim/snippet.sh' C. Qi 2021-02-13 19:13:13 +0100
  • 96a1e59daf Add 'rnaseq/step5_count/snippet_counts' p280381-featureCounts-1 A.K. Saikumar Jayalatha 2021-02-12 15:54:26 +0100
  • 1037d154e3 Small snippet that generates a genome index and aligns the RNAseq reads. step3/star-alignment-snippet Hylke C. Donker 2021-02-09 17:31:42 +0100
  • a7651f6a21 UMI deduplication script from Victor TatiKarp 2021-02-12 13:52:56 +0100
  • 648cd09a0e fastqc: simple comment. trimming: reverted back. overall qc: simplified the scripts and made sure to add instructions. Jos van Nijnatten 2021-02-10 13:42:51 +0100
  • 135f231c86 Remove whitespace, MacOS specific files. Jos van Nijnatten 2021-02-09 15:39:35 +0100
  • 58bd93171c Test change Jos van Nijnatten 2021-02-09 15:15:59 +0100
  • 3d7c9e3b1c FastQC, Trimming, Overall QC (initial) Jos van Nijnatten 2021-02-09 12:52:44 +0100
  • 7ecbc2aee9 Template structure. Hylke C. Donker 2021-02-09 11:20:27 +0100
  • 0dcd6ac858 Merge branch 'feature/drone-pipeline' Hylke Cornelis Donker 2019-12-12 18:00:15 +0100
  • d28fafef27 Another try of drone Hylke Cornelis Donker 2019-12-12 16:46:39 +0100
  • 37bde351e1 Added Drone with R linter. Hylke Cornelis Donker 2019-12-12 16:40:57 +0100
  • ae75ad9f9d Merge branch 'master' of https://git.web.rug.nl/GRIAC/system_genetics Hylke Cornelis Donker 2019-12-12 16:19:57 +0100
  • 828476002a This is a test Corneel Vermeulen 2019-12-12 15:24:40 +0100
  • 02d446ad5a first commit Corneel Vermeulen 2019-12-12 11:34:28 +0100
  • 1dcf333571 first commit Hylke Cornelis Donker 2019-12-11 11:41:34 +0100