Commits · 49083683eb2e1a560449f831e468340527516924 · FONDA_A6 / popinSnake · GitLab

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Jan 30, 2025
- add more temporary files to be removed when workflow finish · 49083683
  kdc715 authored 2 months ago
  
  49083683
Jan 23, 2025
- samtools multithreading scheduling fix · f30daff1
  kdc715 authored 3 months ago
  
  f30daff1
Jan 21, 2025
- fix memory allocation for samtool multithreading rules · 021311d9
  kdc715 authored 3 months ago
  
  021311d9
Dec 18, 2024
- fixing filepaths for conda environment paths, notebook paths, and notebook inputs · b06c0523
  kdc715 authored 4 months ago
  
  b06c0523
Dec 17, 2024
- modify resource parameters from time to runtime, value 12:00:00 to 12h · fa5048ec
  kdc715 authored 4 months ago
  
  fa5048ec
Dec 16, 2024
- fix log files; change email waiting time to 12:00:00 · b68c11c9
  kdc715 authored 4 months ago
  
  b68c11c9
Dec 13, 2024
- fix resources for dynamic scheduling · a5062978
  kdc715 authored 4 months ago
  
  a5062978
- add dynamic scheduling for crop_unmapped · 1338cbbf
  kdc715 authored 4 months ago
  
  1338cbbf
Dec 12, 2024
- add cluster configuration for all rules, update README, remove manual input for sample names · 0ace4544
  kdc715 authored 4 months ago
  
  0ace4544
Nov 29, 2024
- rename modules; seperate output paths and workflow paths · 04f162d0
  Kedi Cao authored 4 months ago
  
  04f162d0
Oct 08, 2024
- modify coverage calculation method, add analysis for comparing popins filter params and sickle · b0bf1af4
  kdc715 authored 6 months ago
  
  b0bf1af4
Oct 02, 2024
- use samtools to calculate contig coverage and change notebook for heatmap visualization · 71d33b17
  kdc715 authored 6 months ago
  
  71d33b17
Sep 30, 2024
- modify snakefiles to add log files and benchmarking options for each rule · e004f263
  kdc715 authored 6 months ago
  
  e004f263
Sep 27, 2024
- fix analysis module, clean up jupyter notebook functions · 25c4367f
  kdc715 authored 6 months ago
  
  25c4367f
Sep 23, 2024
- add modularized workflow with kraken2 for contamination removal to new branch for testing · e04319c9
  kdc715 authored 7 months ago
  
  e04319c9