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@vadimnazarov vadimnazarov released this 14 May 14:41
· 250 commits to master since this release
2.0
6f326da

Code

2.0 version

  • Now tcR operates on default cloneset data frames with fixed columns. Input functions are changed to match this.
  • Rename *.segments to *.gene columns.
  • Rename freq.segments to geneUsage and refactor arguments, esp. .alphabet = HUMAN_TRBV.
  • Merge freq.segments and freq.segments.2D to the one function geneUsage.
  • Rename mitcr.stats to cloneset.stats.
  • Rename lib.mitcr.stats to repseq.stats.
  • Rename tcR::intersect to intersectClonesets to avoid collisions.
  • Replace vis.*.usage with general function vis.gene.usage.
  • Add general function for computing the repertoire overlap repOverlap.
  • Add general function for computing the repertoire diversity repDiversity.
  • Rename "Barcode." columns to "Umi.".

Vignette

2.0 version

  • Rewrite vignette using Rmd and knitr.

Other

2.0 version

  • Rename ___ALPHABET to just **.
  • Rewrite reports.
  • Update the website with the new vignette, examples of general functions, versions.
  • Upload 2.0 to CRAN.
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