PNNL-CompBio/coderdata

Issues

• contributing page has no details

  #189 opened 8 days ago
  2

• HCMI sample file is missing important metadata and does not cover the entire repository

  #186 opened 12 days ago
  0

• create utility script to conform to common cancer types

  #185 opened 23 days ago
  0

• mpnst copy number data has additional column

  #184 opened 23 days ago
  0

• beataml experiments still using old dose respones metric columns

  #182 opened 23 days ago
  0

• mpnst sample files missing 'other names' column

  #181 opened 23 days ago
  0

• beataml and hcmi sample files missing species

  #180 opened 23 days ago
  0

• Column labels as multiple rows in experiments dataframe

  #178 opened 12 days ago
  1

• BeatAML Drugs not generating correctly.

  #177 opened a month ago
  2

• Inconsistency in copy_call values

  #174 opened a month ago
  2

• cptac samples failing when running from build_all.py

  #172 opened a month ago
  1

• broad_sanger_omics samples generation error

  #171 opened a month ago
  2

• not enough free space error when running python build/build_all.py --docker

  #170 opened a month ago
  1

• Local build doesn't work without synapse login permissions

  #169 opened a month ago
  0

• HTTPS_PROXY key error when trying to run python build/build_all.py --docker

  #168 opened a month ago
  2

• No 00-buildGeneFile.R file in broad_sanger

  #167 opened a month ago
  1

• unable to build docker described in broad_sanger/README.md

  #166 opened a month ago
  3

• HCMI Samples file is skipping some improve_sample_id values.

  #165 opened 12 days ago
  1

• Broad_Sanger Samples File has duplicate improve_sample_ids and maybe more issues

  #164 opened 12 days ago
  2

• MPNST datasets' "improve_sample_id" not aligning with the coderdata version 0.1.26

  #163 opened a month ago
  3

• tutorial missing download step

  #162 opened a month ago
  0

• broad_sanger experiments file not concatenatated correctly upon creation

  #161 opened a month ago
  5

• broad_sanger samples file has quotes around all values - (breaking Polars during testing)

  #160 opened a month ago
  5

• Convert Python Package from Pandas to Polars

  #159 opened a month ago
  8

• Update README to have contributing guide

  #156 opened 8 days ago
  1

• Update local build script for efficiency and upload

  #155 opened 6 days ago
  0

• Ensure all datasets have the same transcriptomics normalization metric

  #154 opened 2 months ago
  3

• MPNST sample data does not match model types.

  #153 opened 2 months ago
  0

• Update doc page with current datasets

  #148 opened 2 months ago
  4

• Typos on Drug Response Tutorial page

  #147 opened 2 months ago
  0

• consider adding PDX data

  #146 opened 2 months ago
  3

• pyaml not installed when running pip install coderdata

  #145 opened 2 months ago
  0

• add in kids first brain tumor cell line data

  #144 opened 2 months ago
  0

• think about breaking up cell line data docker

  #143 opened 2 months ago
  0

• populate drugs structure property table

  #142 opened 2 months ago
  5

• Filter all omics data to only analyze 20k protein coding genes

  #141 opened 2 months ago
  0

• Move drug curve calculation to multithreaded

  #140 opened a month ago
  0

• add in new NCI60 and alter time treatment

  #139 opened a month ago
  2

• mpnst Drugs file does not include drug synonyms

  #138 opened 2 months ago
  0

• Drop NA values in Broad_Sanger Mutation Data

  #137 opened 2 months ago
  0

• Drop NA values in Broad_Sanger Copy Number Data

  #136 opened 2 months ago
  0

• Drop NA values in Broad_Sanger Transcriptomic Data

  #135 opened 2 months ago
  0

• BeatAML Drugs file does not include drug synonyms

  #134 opened 2 months ago
  0

• Drop NA values in CPTAC Transcriptomic Data

  #133 opened 2 months ago
  0

• Drop NA values in CPTAC Proteomics Data

  #132 opened 2 months ago
  0

• Drop NA values in CPTAC Copy Number Data

  #131 opened 2 months ago
  0

• Drop NA values in BeatAML Proteomics Data

  #130 opened 2 months ago
  0

• Drop NA values in HCMI Copy Number Data

  #129 opened 2 months ago
  0

• Drop NA values in HCMI Transcriptomics Data

  #128 opened 2 months ago
  0

• All HCMI Data have index columns

  #127 opened 2 months ago
  0