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ShapeMapper2 version 2.1.5
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@shapemapper shapemapper released this 02 Aug 22:45
· 16 commits to master since this release
2.1.5
e51a311

No future updates are planned beyond this final release.

Changes in this version:

  • Fixed bug in reported median mutation rates in histogram figures
    (previous ShapeMapper versions actually displayed the 5th percentile)
  • Added guidance for running ShapeMapper components piecemeal (see
    Modular workflow)
  • Added output histogram plot of un-normalized ln(mut_rate_modified/mut_rate_untreated)
  • Reorganized list of ShapeMapper dependencies (see Building)
  • Adjusted --min-mutation-separation 0 behavior to match expectations
  • Added missing --output-aligned-reads option
  • Allow --input_is_unpaired argument to shapemapper_mutation_parser
    to override flags present in SAM alignment
  • Fixed issue with unit test paths on machines outside the build environment
  • Fixed issue with undocumented --separate-ambig-counts param
  • Exposed bowtie2 effort params -R and -D as --max-reseed
    and --max-search-depth
  • Added a more helpful error message in certain cases of missing input files
  • Added error messages when attempting to run on a Mac or run when executables are not present
  • Added a top-level CMakeLists to simplify most common build situation
Assets 4