PNNL-CompBio/Snekmer

Issues

• Apply fails with single input file

  #123 opened 3 months ago by tnitka
  2

• windows- zipped files not detected/unzipped yet

  #60 opened 2 years ago by abbyjerger
  6

• Turn into Pypi Package

  #119 opened 2 months ago by jjacobson95
  2

• Update Learn / Apply annotation file format

  #122 opened 3 months ago by jjacobson95
  0

• Increasing min_rep doesn't reduce cluster memory usage

  #121 opened 4 months ago by tnitka
  0

• Add Dockerfile generation to Continuous Integration

  #120 opened 5 months ago by jjacobson95
  0

• kmer-association learn workflow implementation

  #70 opened 6 months ago by biodataganache
  2

• LA tutorial issues

  #117 opened 6 months ago by biodataganache
  1

• Background file issue

  #37 opened 2 years ago by biodataganache
  2

• Update Learn Apply Output

  #114 opened 10 months ago by jjacobson95
  0

• Update snekmer workflow graphic

  #113 opened 10 months ago by biodataganache
  0

• Update main readme

  #112 opened 10 months ago by biodataganache
  0

• Model packaging

  #89 opened 2 years ago by biodataganache
  1

• Specifying input directory causes PeriodicWildcardError

  #110 opened a year ago by tnitka
  2

• Snekmer search: SnekmerModel' object has no attribute 'predict_proba

  #108 opened a year ago by joeho604
  7

• M1 issues

  #102 opened a year ago by christinehc
  0

• Documentation README

  #33 opened 2 years ago by biodataganache
  1

• Update Jupyter Notebook in Tutorial

  #52 opened 2 years ago by jjacobson95
  1

• Documentation update - Expected file outputs.

  #56 opened 2 years ago by jjacobson95
  1

• Update documentation to include BSF clustering

  #62 opened 2 years ago by christinehc
  1

• Min_filter impact on modeling results

  #88 opened 2 years ago by biodataganache
  0

• min_filter as percentage

  #87 opened 2 years ago by biodataganache
  0

• Inconsistencies arising from input_file_regex

  #82 opened 2 years ago by wichne
  0

• Pull kmer length and recoding alphabet from model in search mode

  #80 opened 2 years ago by wichne
  0

• Speed issue

  #43 opened 2 years ago by biodataganache
  7

• Memory usage

  #73 opened 2 years ago by biodataganache
  1

• Speed issue

  #77 opened 2 years ago by biodataganache
  0

• Memory usage issue

  #71 opened 2 years ago by biodataganache
  1

• Background distribution handling

  #74 opened 2 years ago by biodataganache
  1

• windows- matplotlib backend error

  #61 opened 2 years ago by abbyjerger
  1

• Environment.yml for Windows

  #65 opened 2 years ago by abbyjerger
  0

• kier-association code

  #66 opened 2 years ago by biodataganache
  1

• Environment.yml in main branch installs v1.0.0

  #64 opened 2 years ago by abbyjerger
  1

• Add CLI print statements if BSF is detected and used.

  #59 opened 2 years ago by jjacobson95
  0

• Very small documentation update - Install Instructions

  #58 opened 2 years ago by jjacobson95
  0

• Snekmer fails to run from a directory with a spacemark in the path.

  #55 opened 2 years ago by jjacobson95
  4

• CLI - "snekmer model" failing on Score rule.

  #54 opened 2 years ago by jjacobson95
  2

• Update documentation for BSF install instructions

  #51 opened 2 years ago by biodataganache
  0

• Numpy Version downgrade

  #53 opened 2 years ago by jjacobson95
  1

• Alphabet type None not functional

  #50 opened 2 years ago by biodataganache
  1

• Possible issue - "Missing file outputs" message in "snekmer cluster" and "snekmer model" logs

  #57 opened 2 years ago by jjacobson95
  1

• Clustering not working bc of fa_map and not FA_MAP

  #46 opened 2 years ago by openpaul
  1

• Prediction scores output

  #36 opened 2 years ago by biodataganache
  2

• Re-run cross-validation evaluation using updated code

  #41 opened 2 years ago by biodataganache
  2

• Install instructions problem

  #42 opened 2 years ago by biodataganache
  0

• Add output description to README

  #35 opened 2 years ago by biodataganache
  1

• Weird output

  #38 opened 2 years ago by biodataganache
  2

• Bad file reference in config.yaml template file

  #40 opened 2 years ago by wichne
  3

• Negative control fail

  #39 opened 2 years ago by biodataganache
  11

• One input fasta class bug

  #34 opened 2 years ago by biodataganache
  2