Issues

• BUG: cfg.py UserWarning

  bug
  vanheeringen-lab/seq2science#1032 · Filter by author bbidonb opened on Oct 9, 2025
  1

• BUG: Cyclic dependency on rule samtools_sort

  bug
  vanheeringen-lab/seq2science#1028 · Filter by author VDaric opened on Dec 16, 2024
  2

• BUG: Authentication plugin 'mysql_native_password' cannot be loaded

  bug
  vanheeringen-lab/seq2science#1027 · Filter by author Leif78 opened on Sep 6, 2024
  4

• FR: [DEG by Salmon]

  enhancement
  vanheeringen-lab/seq2science#1026 · Filter by author bioinfolabmu opened on Feb 28, 2024

• Q: [DEG analysis contrast]

  question
  vanheeringen-lab/seq2science#1022 · Filter by author bioinfolabmu opened on Dec 9, 2023
  1

• Q: [Comparative RNA-Seq analysis]

  question
  vanheeringen-lab/seq2science#1021 · Filter by author bioinfolabmu opened on Dec 4, 2023
  2

• STAR 2-pass alignment

  vanheeringen-lab/seq2science#1020 · Filter by author siebrenf opened on Nov 29, 2023
  1

• Combining STAR and Salmon

  vanheeringen-lab/seq2science#1019 · Filter by author siebrenf opened on Nov 29, 2023
  5

• BUG: [config.yaml error]

  bug
  vanheeringen-lab/seq2science#1018 · Filter by author bioinfolabmu opened on Nov 26, 2023
  15

• FR: Use temporary directories for sra and temporary fastq files

  enhancement
  vanheeringen-lab/seq2science#961 · Filter by author simonvh opened on Mar 17, 2023
  14

• FR: single cell RNA filtering

  enhancement
  vanheeringen-lab/seq2science#924 · Filter by author Maarten-vd-Sande opened on Nov 24, 2022

• BUG: qc_scRNA rules dont use params, so rerunning doesn't work

  bug
  vanheeringen-lab/seq2science#923 · Filter by author Maarten-vd-Sande opened on Nov 23, 2022

• FR: cleanup for manuscript

  enhancement
  vanheeringen-lab/seq2science#915 · Filter by author Maarten-vd-Sande opened on Nov 17, 2022
  

• FR: get mitochondrial genes from genomepy for SCTK

  enhancementstale
  vanheeringen-lab/seq2science#847 · Filter by author siebrenf opened on Apr 13, 2022
  2

• incorporate single cell DESeq2?

  stale
  vanheeringen-lab/seq2science#837 · Filter by author siebrenf opened on Mar 29, 2022
  1

• FR: update pyproject.toml

  enhancementstale
  vanheeringen-lab/seq2science#834 · Filter by author siebrenf opened on Mar 28, 2022
  4

• FR: flake8

  enhancementstale
  vanheeringen-lab/seq2science#833 · Filter by author siebrenf opened on Mar 28, 2022
  1

• BUG: Complete log file is incomplete

  bug
  vanheeringen-lab/seq2science#688 · Filter by author Rebecza opened on Apr 23, 2021
  9

• BUG: Workflow not running

  bug
  vanheeringen-lab/seq2science#681 · Filter by author JihedC opened on Apr 13, 2021
  20

• FR: chip-R

  enhancement
  vanheeringen-lab/seq2science#624 · Filter by author Maarten-vd-Sande opened on Jan 13, 2021
  

• FR: Order of samples in MultiQC same as in samples

  enhancementwontfix
  vanheeringen-lab/seq2science#544 · Filter by author Maarten-vd-Sande opened on Oct 29, 2020
  5

• BUG: duplicate descriptive names across assemblies

  bughelp wanted
  vanheeringen-lab/seq2science#477 · Filter by author Maarten-vd-Sande opened on Aug 21, 2020
  1

  

• BUG: Indexing of Spur_5.0 assembly fails

  bugwontfix
  vanheeringen-lab/seq2science#436 · Filter by author Maarten-vd-Sande opened on Jul 23, 2020
  7

• BUG/FR: Data wrongly notated as single/paired-end

  bugenhancementwontfix
  vanheeringen-lab/seq2science#228 · Filter by author Maarten-vd-Sande opened on Dec 16, 2019
  2