cidgoh/bacpaq

Issues

• Update the README file

  #35 opened 4 months ago by anwarMZ
  1

• Use new nf-validation plugin to check samplesheet input

  #10 opened 4 months ago by azmigueldario
  4

• Workflow for genome annotation

  #28 opened 4 months ago by anwarMZ
  0

• Sub-workflow for AMR detection

  #29 opened 4 months ago by anwarMZ
  2

• Create a Sub-workflow for Protein functional annotation

  #36 opened 4 months ago by jimmyliu1326
  0

• MultiQC format needs improvement

  #63 opened 4 months ago by anwarMZ
  1

• Create a nextflow module for PEPPAN

  #40 opened 7 months ago by anwarMZ
  3

• Create a nextflow module for ResFinder

  #30 opened 7 months ago by anwarMZ
  1

• Sub-workflow for gene annotation

  #32 opened 7 months ago by anwarMZ
  1

• Sub-workflow for pangenome analysis

  #38 opened 7 months ago by anwarMZ
  3

• Create a Sub-workflow for Plasmid prediction

  #34 opened 7 months ago by jimmyliu1326
  1

• Sub-workflow for Phage prediction

  #31 opened 7 months ago by jimmyliu1326
  2

• Create a Nextflow module for Virsorter2

  #33 opened 7 months ago by jimmyliu1326
  1

• Create a Sub-workflow for CRISPR prediction and typing

  #39 opened 7 months ago by jimmyliu1326
  1

• Create a nextflow module for CRISPRCasTyper

  #41 opened 7 months ago by jimmyliu1326
  1

• Samplesheet for annotation workflow and stage dummy file when skipping QC

  #49 opened 9 months ago by anwarMZ
  0

• Create a nextflow module for eggnog-mapper2

  #37 opened 9 months ago by jimmyliu1326
  1

• Create container for PEPPAN

  #43 opened 10 months ago by azmigueldario
  2

• Validation of qc databases shoud be moved to qc workflow

  #48 opened 10 months ago by anwarMZ
  0

• Filter by assemblies length

  #11 opened a year ago by davidtong28
  0

• Add description for the parameters exposed to the workflow

  #27 opened a year ago by anwarMZ
  0

• Adding option to only perform assembly QC

  #8 opened a year ago by davidtong28
  3

• Add slurm job submission config profile

  #5 opened a year ago by davidtong28
  2

• Issue with checksamplesheet.py

  #6 opened a year ago by davidtong28
  0

• Nanopore taxonomy QC

  #16 opened a year ago by mayee123
  0

• Creating a zero file when Shovill gives an error

  #19 opened a year ago by davidtong28
  0

• Skipping dehosting also skips assembly qc

  #7 opened a year ago by davidtong28
  1

• Conda environment for RMLSTPARSE missing.

  #4 opened 2 years ago by davidtong28
  0