mjmlab/pyinseq

Issues

• Unknown argument(s): {'colour': 'green'}

  #90 opened 2 years ago by nbutyrate
  0

• No module named 'importlib.metadata'

  #89 opened 2 years ago by nbutyrate
  0

• Running the pipeline without sample list.

  #88 opened 2 years ago by gaworj
  3

• Installation instructions for snakelike need to include mamba

  #86 opened 2 years ago by mandel01
  1

• Summary gene table output is incorrect, only includes last entry for each gene from *genes.txt

  #85 opened 3 years ago by mandel01
  5

• Add to bioconda

  #84 opened 3 years ago by mandel01
  1

• Matplotlib from conda missing baseline images when `pyinseq --test` is called

  #83 opened 3 years ago by eburgoswisc
  1

• Re-running previously demultiplexed samples

  #31 opened 3 years ago by biobenkj
  3

• Bug in PyPi project description

  #82 opened 3 years ago by eburgoswisc
  3

• Need pypi description

  #53 opened 3 years ago by mandel01
  1

• Handling of reads that begin with TA site

  #77 opened 3 years ago by eburgoswisc
  0

• Use Exception Class for Pyinseq specific errors

  #74 opened 5 years ago by eburgoswisc
  3

• File reading in demultiplex is slow

  #73 opened 6 years ago by eburgoswisc
  1

• three_primeness math

  #71 opened 6 years ago by mandel01
  0

• ReadTheDocs documentation build is failing

  #57 opened 6 years ago by mandel01
  1

• Automatically deploy docs to gh-pages

  #50 opened 8 years ago by mandel01
  0

• test_pyinseq_genomeprep_script doesn't seem to work

  #52 opened 6 years ago by mandel01
  5

• pip install for requirements.txt error

  #29 opened 9 years ago by biobenkj
  1

• New directory generator based on experiment name

  #30 opened 7 years ago by biobenkj
  1

• Items that need to be documented or that need better documentation

  #35 opened 7 years ago by mandel01
  1

• Documentation

  #10 opened 9 years ago by biobenkj
  2

• Bundle bowtie directly in the package

  #11 opened 9 years ago by mandel01
  2

• disruption fraction (i.e., threePrimeness) is not working

  #12 opened 9 years ago by mandel01
  1

• Process reads file (.fastq) by demultiplexing

  #13 opened 9 years ago by mandel01
  3

• Rework the mapping so that it scales to the size of the real datasets

  #14 opened 9 years ago by mandel01
  1

• Improve testing

  #19 opened 9 years ago by mandel01
  2

• Improve appearance of documentation

  #20 opened 8 years ago by mandel01
  6

• Initial thoughts for contributors guide.

  #21 opened 6 years ago by mandel01
  0

• Add dev branch

  #23 opened 9 years ago by mandel01
  0

• Images for README.md

  #1 opened 9 years ago by mandel01
  0

• Excel-generated tsv files don't work for demultiplex.py

  #2 opened 9 years ago by mandel01
  2

• Code testing and test datasets

  #3 opened 9 years ago by biobenkj
  3

• Barcodes are not being filtered out properly

  #5 opened 9 years ago by mandel01
  1

• `filterSortCounts()` sorting as strings

  #6 opened 9 years ago by mandel01
  1

• Overall optimization

  #8 opened 7 years ago by mandel01
  7

• License

  #9 opened 9 years ago by biobenkj
  2

• Summary of results and logging

  #7 opened 7 years ago by mandel01
  12

• Writing more informative tests and reorganizing the repo so tests can query individual functions.

  #37 opened 7 years ago by mandel01
  1

• Github displays wrong language

  #22 opened 8 years ago by mandel01
  3

• Improve the modular design of the pipeline

  #18 opened 9 years ago by mandel01
  1

• CPM are binning at 10/100/1000

  #4 opened 9 years ago by mandel01
  4