kbseah/genome-bin-tools

Issues

• Error in tabulate(taxon) : 'bin' must be numeric or a factor

  #37 opened 3 years ago by Anto007
  3

• Empty scaffolds list & Error: unexpected symbol in "perl fastg_paths_fishing.pl"

  #36 opened 4 years ago by michellehauer
  0

• Coverage-GC plot in R error: 'legend' is of length 0

  #35 opened 5 years ago by jade-davies
  5

• Empty scaffold list files

  #34 opened 5 years ago by minna-miha
  4

• whitespace in contig names

  #33 opened 6 years ago by kbseah
  0

• Documentation fix

  #28 opened 7 years ago by kbseah
  1

• Alternative to Log::Message::Simple

  #30 opened 7 years ago by kbseah
  1

• Move accessory scripts to `inst` folder

  #31 opened 7 years ago by kbseah
  1

• Installation from Github with `devtools`

  #32 opened 7 years ago by kbseah
  1

• parse coverage from Fasta headers in SPAdes and Velvet output

  #16 opened 7 years ago by kbseah
  0

• alternative to Amphora2

  #29 opened 8 years ago by kbseah
  0

• Add SSU marker overlay to `multiBinPlot`

  #27 opened 8 years ago by kbseah
  0

• Header names sometimes don't match in SPAdes scaffolds.paths vs. scaffolds.fastg

  #26 opened 8 years ago by kbseah
  0

• Add support for Fastg output from other assemblers

  #25 opened 8 years ago by kbseah
  0

• Import CheckM results

  #24 opened 9 years ago by kbseah
  0

• color contig points by parameter

  #23 opened 9 years ago by kbseah
  0

• summary() should report average coverage for a bin

  #22 opened 9 years ago by kbseah
  2

• improve input file checker

  #21 opened 9 years ago by kbseah
  1

• Implement connection distance `fastgFish()`

  #19 opened 9 years ago by kbseah
  1

• `plot.gbt()` error when `markCutoff=1`

  #20 opened 9 years ago by kbseah
  1

• have `winnowMark()` include SSU markers

  #18 opened 9 years ago by kbseah
  0

• allow highlighting of specific taxa in plots

  #15 opened 9 years ago by kbseah
  2

• implement taxon highlighting as plot parameter

  #17 opened 9 years ago by kbseah
  1

• temp file names

  #2 opened 9 years ago by kbseah
  2

• implement support for contig connectivity from SAM

  #4 opened 9 years ago by kbseah
  1

• `fastgFishing()` multiple issues

  #12 opened 9 years ago by kbseah
  2

• Implement user-adjustable scaling parameter for plots

  #11 opened 9 years ago by kbseah
  1

• make importBins() import as a list of gbtbin objects

  #14 opened 9 years ago by kbseah
  1

• winnowMark() needs marksource parameter

  #13 opened 10 years ago by kbseah
  1

• gbt() dies if mark= not supplied

  #9 opened 10 years ago by kbseah
  1

• `get_ssu_for_genome_bin_tools.pl` no longer in sync with phyloFlash database

  #10 opened 10 years ago by kbseah
  1

• EOF character in coverage tables

  #1 opened 10 years ago by kbseah
  1

• document input file formats

  #6 opened 10 years ago by kbseah
  1

• add new field 'source' to marker annotation table

  #7 opened 10 years ago by kbseah
  1

• Make `match.call()` append to call history instead of replacing it.

  #8 opened 10 years ago by kbseah
  1

• save function calls for bin manipulations

  #5 opened 10 years ago by kbseah
  1

• terminology fix: LOJ should be LEJ

  #3 opened 10 years ago by kbseah
  1