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Dec 21, 2023
- Merge branch 'dev' · 90467b2b
  David Oliver authored 1 year ago
  
  90467b2b
- Merge branch 'update-diffmots' into dev · ea528e25
  David Oliver authored 1 year ago
  
  ea528e25
- barebones readme added · 1b120c72
  David Oliver authored 1 year ago
  
  1b120c72
Dec 20, 2023
- Merge branch 'dev' · be421c4b
  David Oliver authored 1 year ago
  
  be421c4b
Sep 21, 2023
- Fixed a bug in testDiffMotifs() that returned zero for small values of · d8a26000
  chinenovy authored 1 year ago
  d8a26000
- fixed a bud in testDiffMotiffs() that reported 0 for p.values <... · b20bb3fb
  chinenovy authored 1 year ago
  b20bb3fb
- fixed a bud in testDiffMotiffs() that reported 0 for p.values < .Machine$double.eps · 296a856c
  chinenovy authored 1 year ago
  
  296a856c
Sep 20, 2023
- removes min.diff parameter in testDiffMotifs · b9cb6b3d
  David Oliver authored 1 year ago
  
  b9cb6b3d
Sep 16, 2023
- added Ruoxi's plotMotifProfile_manual() function · b1743edb
  chinenovy authored 1 year ago
  
  b1743edb
Sep 13, 2023
- changes in getDiffKnownMotifs()to impove visualization · 9c67c0e9
  chinenovy authored 1 year ago
  
  9c67c0e9
Sep 08, 2023
- Merge branch 'never_ending' into dev · 957f37b1
  David Oliver authored 1 year ago
  
  957f37b1
Sep 07, 2023
- fixes bug in track hub generation caused by non-escaped period · 8283e2bd
  David Oliver authored 1 year ago
  
  8283e2bd
May 26, 2023
- Fixed incorrect reporting of total samples with peak and total replicas with peak (added 1 to each) · 1a7843c8
  chinenovy authored 1 year ago
  
  1a7843c8
May 19, 2023
- color_utils something or other · ce2e0fc7
  David Oliver authored 1 year ago
  
  ce2e0fc7
Jan 18, 2023
- minor bug fixes and motif profiling functions · 0ef09eb1
  David Oliver authored 2 years ago
  
  0ef09eb1
Nov 02, 2022
- Merge branch 'minor_improvements' into dev · 95a1b7e0
  David Oliver authored 2 years ago
  
  95a1b7e0
- minor updates and bugfixes · 3d054002
  David Oliver authored 2 years ago
  
  3d054002
- adds more color utility functions · e0708a41
  David Oliver authored 2 years ago
  
  e0708a41
- adds new color generating functions · a28f21a1
  David Oliver authored 2 years ago
  
  a28f21a1
- axis, ylim and heatMarMargins have been exposed for better control of density... · 8f4fcb88
  chinenovy authored 2 years ago
  8f4fcb88
- minor updates and bugfixes · 497bdfab
  David Oliver authored 2 years ago
  
  497bdfab
Oct 14, 2022
- adds more color utility functions · 1e205203
  David Oliver authored 2 years ago
  
  1e205203
Sep 30, 2022
- adds new color generating functions · f61247c8
  David Oliver authored 2 years ago
  
  f61247c8
Sep 28, 2022
- Merge branch 'minor_improvements' into dev · 1ffff345
  David Oliver authored 2 years ago
  
  1ffff345
- finishes rmd section for trackhubs and improves coloring · 49e0d0d9
  David Oliver authored 2 years ago
  
  49e0d0d9
Sep 27, 2022
- adds functions and code for automatigically creating trackhubs at the end of the workflow · 049a86ea
  David Oliver authored 2 years ago
  
  049a86ea
Sep 26, 2022
- Merge branch 'minor_improvements' into dev · 48cb3681
  David Oliver authored 2 years ago
  
  48cb3681
- minor modifications to rmd · 9f9d8c3d
  David Oliver authored 2 years ago
  
  9f9d8c3d
- Merge branch 'footprinting' into dev · 33805a12
  David Oliver authored 2 years ago
  
  33805a12
- small changes and improvments to plotting functions · 5d96cc11
  David Oliver authored 2 years ago
  
  5d96cc11
- adds helper function for counting motifs · 4b114bca
  David Oliver authored 2 years ago
  
  4b114bca
- adds tools for testing differential footprint and footprint enrichment · 66c06c8a
  David Oliver authored 2 years ago
  
  66c06c8a
- adds file.name parameter to saveGSEAXlsx · adaced9f
  David Oliver authored 2 years ago
  
  adaced9f
- copies tpm function from Shiny · 03e13fcb
  David Oliver authored 2 years ago
  
  03e13fcb
- minor re-ordering of QC plots post Differential analysis. Also fixes bug in... · 350782d8
  David Oliver authored 2 years ago
  350782d8
- fixed a bug where min.size and max.size were not properly passed to recursive part of fgseaWrapper · c778f5cf
  David Oliver authored 2 years ago
  
  c778f5cf
- adds filtering for smallest tagwise dispersion value(s) · 542a91b5
  David Oliver authored 2 years ago
  
  542a91b5
- bug fix in annotation · 28e28246
  David Oliver authored 2 years ago
  
  28e28246
- fixes bad logic around repPeakVenn plotting in the rmd · 06befb95
  David Oliver authored 2 years ago
  
  06befb95
- adds new method for establishing species before running analysis rmd · 73cc99cb
  David Oliver authored 2 years ago
  
  73cc99cb