Issues

• Bowtie2 index step may appear stuck with high thread counts on WSL2; completes quickly with fewer threads

  vanheeringen-lab/genomepy#262 · Filter by author ZichenYang-glitch opened on Dec 17, 2025

• requests.exceptions.ChunkedEncodingError

  vanheeringen-lab/genomepy#258 · Filter by author nick-youngblut opened on Apr 4, 2025

• SSL Error Downloading Genome

  vanheeringen-lab/genomepy#247 · Filter by author sojichld opened on Jul 9, 2024

• Add proxy support

  vanheeringen-lab/genomepy#246 · Filter by author Mitmischer opened on Mar 15, 2024

• Genomepy install gets stuck

  vanheeringen-lab/genomepy#245 · Filter by author DavideBrex opened on Jan 18, 2024

• does not load gtf with chromose information

  vanheeringen-lab/genomepy#244 · Filter by author antonkulaga opened on Sep 5, 2023
  1

• cannot install genomepy with conda on arm64 Mac OS X

  vanheeringen-lab/genomepy#221 · Filter by author ctb opened on Sep 28, 2022
  2

• Issue with gtfToGenePred

  vanheeringen-lab/genomepy#217 · Filter by author simonvh opened on Aug 5, 2022
  1

• details of external databases

  vanheeringen-lab/genomepy#200 · Filter by author zhichengwang59 opened on Mar 18, 2022
  1

• Network Error

  vanheeringen-lab/genomepy#192 · Filter by author nyxmoth opened on Dec 2, 2021
  1

• Using Rich for better terminal output

  vanheeringen-lab/genomepy#189 · Filter by author Mr-Milk opened on Nov 10, 2021
  1

• Add a citation file.

  enhancementminor
  vanheeringen-lab/genomepy#177 · Filter by author simonvh opened on Jul 28, 2021

• chromosome order

  vanheeringen-lab/genomepy#146 · Filter by author Phlya opened on Jan 8, 2021
  11

• Multiple genomes option?

  vanheeringen-lab/genomepy#145 · Filter by author Ahmed-Shibl opened on Dec 9, 2020
  1

• bad filing on Ensembl

  bugwontfix
  vanheeringen-lab/genomepy#123 · Filter by author siebrenf opened on Aug 28, 2020
  1

• Illumina iGenomes as provider

  enhancement
  vanheeringen-lab/genomepy#20 · Filter by author simonvh opened on Oct 13, 2017