Commits · 2ba3983c43e09d672460da919898aea0bcb721b8 · github_fork / Universc · GitLab

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Apr 27, 2021
- add automatic generation of missing index (I1) file from FASTQ headers · 2ba3983c
  TomKellyGenetics authored Apr 27, 2021
  
  2ba3983c
- add automatic generation of missing dual index (I1 and I2) files from FASTQ headers · efd20a52
  TomKellyGenetics authored Apr 27, 2021
  
  efd20a52
Apr 23, 2021
- run SCI-Seq test job successfully (with correct indices) · f16e5f3b
  TomKellyGenetics authored Apr 23, 2021
  
  f16e5f3b
- run test with small whitelist for dual indexes · 39e91d41
  TomKellyGenetics authored Apr 23, 2021
  
  39e91d41
- correct processing hairpin barcodes for SCI-Seq · 6d621196
  TomKellyGenetics authored Apr 23, 2021
  
  6d621196
- update white lists for SCI-Seq (3-levels) and local test job · dddf7af5
  TomKellyGenetics authored Apr 23, 2021
  
  dddf7af5
Apr 22, 2021
- correct SCI-Seq barcode whitelists · ead79e31
  TomKellyGenetics authored Apr 22, 2021
  
  ead79e31
Apr 21, 2021
- split-seq whitelist · 250e8cf4
  TomKellyGenetics authored Apr 21, 2021
  
  250e8cf4
- update split-seq2 parameters · ba171f73
  TomKellyGenetics authored Apr 21, 2021
  
  ba171f73
- update documentation for SCI-Seq · 98062a04
  TomKellyGenetics authored Apr 21, 2021
  
  98062a04
- separate barcode whitelists and adapter trimmming for 2-level or 3-level SCI-Seq · 37aa5aab
  TomKellyGenetics authored Apr 21, 2021
  
  37aa5aab
- add test data and whitelists for SCI-RNA-Seq3 with dual indexes · 668a8dbb
  TomKellyGenetics authored Apr 21, 2021
  
  668a8dbb
- update dual index barcodes for SCI-Seq (2-level) to remove duplicate barcode whitelists · 11d6de1c
  TomKellyGenetics authored Apr 21, 2021
  
  11d6de1c
- correct syntax in detect chemistry (fix expand sample def bug) · 58bf9a20
  TomKellyGenetics authored Apr 21, 2021
  
  58bf9a20
Apr 16, 2021
- test and debug toggling of long barcodes and UMIs · 333a51c2
  TomKellyGenetics authored Apr 16, 2021
  
  333a51c2
- set up SCI-Seq barcode whitelist · 7a5d3fb2
  TomKellyGenetics authored Apr 16, 2021
  
  7a5d3fb2
- update specs for sci-seq · 6f38eda6
  TomKellyGenetics authored Apr 16, 2021
  
  6f38eda6
- alter for 5' offset if UMI length larger · 042bddb4
  TomKellyGenetics authored Apr 16, 2021
  
  042bddb4
- alter cellranger chemistry parameters · f40e1f24
  TomKellyGenetics authored Apr 16, 2021
  f40e1f24
- configure default inputs if UMI longer than 12 bp · 36a03edf
  TomKellyGenetics authored Apr 16, 2021
  
  36a03edf
- configure default inputs if barcode longer than 16 bp · bf4a7eff
  TomKellyGenetics authored Apr 16, 2021
  
  bf4a7eff
Mar 09, 2021
- automatically correct file names if R1 and R2 are missing from file names · 6d051a09
  TomKellyGenetics authored Mar 08, 2021
  
  6d051a09
Mar 08, 2021
- automatically correct file names if R1 and R2 are missing from file names · 5bf7a9de
  TomKellyGenetics authored Mar 08, 2021
  
  5bf7a9de
- correct default read-length for 5' chemistry · 0f520750
  TomKellyGenetics authored Mar 08, 2021
  
  0f520750
Mar 04, 2021
- correct links in README · 204a7ff3
  TomKellyGenetics authored Mar 04, 2021
  
  204a7ff3
- Merge branch 'master' of github.com:kbattenb/universc · b3035cd3
  TomKellyGenetics authored Mar 04, 2021
  
  b3035cd3
- Added SMARTer II A oligo to the list of sequences to be trimmed in the trimming tool · 64e08efd
  kai.b authored Mar 04, 2021
  
  64e08efd
- Merge branch 'master' of github.com:TomKellyGenetics/universc · 32bf2954
  TomKellyGenetics authored Mar 04, 2021
  
  32bf2954
- Merge branch 'master' of github.com:minoda-lab/universc · 3c810884
  TomKellyGenetics authored Mar 04, 2021
  
  3c810884
- Merge branch 'master' of github.com:kbattenb/universc · 30b2c5fd
  TomKellyGenetics authored Mar 04, 2021
  
  30b2c5fd
- corrected the log output for TrimSeq4scRNAseq.pl to properly output index... · 6aadc510
  kai.b authored Mar 04, 2021
  6aadc510
Feb 26, 2021
- Merge branch 'master' of github.com:TomKellyGenetics/universc into stable · 03ba23dd
  TomKellyGenetics authored Feb 26, 2021
  
  03ba23dd
- Merge branch 'master' of github.com:kbattenb/universc into stable · 63fab048
  TomKellyGenetics authored Feb 26, 2021
  
  63fab048
- Merge branch 'master' of github.com:kbattenb/universc · 091572f4
  TomKellyGenetics authored Feb 26, 2021
  
  091572f4
- add TSO with non-standard eval based on variables for Smart-Seq3 · 3709da1b
  TomKellyGenetics authored Feb 26, 2021
  
  3709da1b
- add TSO with hardcoded barcode configuration for Smart-Seq3 · d6269f87
  TomKellyGenetics authored Feb 26, 2021
  
  d6269f87
Feb 25, 2021
- correct default chemistry for 5' with Smart-Seq · ef4acd21
  TomKellyGenetics authored Feb 25, 2021
  
  ef4acd21
- account for longer UMI than compatible while preserving R1 for 5' chemistry · 079fbca5
  TomKellyGenetics authored Feb 25, 2021
  
  079fbca5
- define UMI subroutine · 4b44da82
  TomKellyGenetics authored Feb 25, 2021
  
  4b44da82
- adjust UMI while preserving R1 for 5' chemistry · 81790e1e
  TomKellyGenetics authored Feb 25, 2021
  
  81790e1e

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