GenomicsAotearoa/metagenomics_summer_school

Issues

• Day 4 R: KEGG library issue

  #87 opened 4 months ago by kmhandley
  1

• Trimmomatic

  #80 opened 4 months ago by anniewest
  3

• SPAdes assembly timed out

  #83 opened 4 months ago by anniewest
  1

• Kraken notes

  #82 opened 4 months ago by anniewest
  1

• Viral taxonomy - cytoscape prep (appendix (ex11))

  #86 opened 4 months ago by kmhandley
  3

• Coverage heatmap results at a glace need correcting

  #85 opened 4 months ago by mlhoggard
  1

• bin refinement vb_export files need .fa extension

  #84 opened 4 months ago by mlhoggard
  1

• 6 - Vizbin fragmented mock bin dataset

  #75 opened 4 months ago by kmhandley
  2

• Can't submit host filtering index script

  #81 opened 4 months ago by anniewest
  2

• Visualisation: KEGG

  #79 opened 4 months ago by kmhandley
  1

• Gene annotation II: DRAM checkM file name

  #78 opened 4 months ago by kmhandley
  1

• Visualisation: ordinations

  #77 opened 4 months ago by kmhandley
  1

• Annotation - signalP

  #76 opened 4 months ago by kmhandley
  1

• Viral taxonomy cytoscape session, missing `Dataset` column

  #71 opened 4 months ago by mlhoggard
  1

• Viral taxonomy tax_predict file missing

  #70 opened 4 months ago by mlhoggard
  1

• 6 - Vizbin

  #74 opened 4 months ago by kmhandley
  2

• Manual bin refinement checkm script

  #69 opened 4 months ago by mlhoggard
  1

• Manual bin refinement script correction

  #68 opened 4 months ago by mlhoggard
  4

• Gene prediction, prodigal mode mismatch

  #72 opened 4 months ago by mlhoggard
  2

• Aragorn link not working

  #73 opened 4 months ago by mlhoggard
  2

• 5 - Intro to binning

  #67 opened 4 months ago by kmhandley
  1

• 4 - Assembly evaluation (part 2)

  #66 opened 4 months ago by kmhandley
  1

• 4 - Assembly evaluation

  #65 opened 4 months ago by kmhandley
  2

• 3 - Assembly I (part 2)

  #63 opened 4 months ago by kmhandley
  1

• 3 - Assembly II

  #64 opened 4 months ago by kmhandley
  2

• 3 - Assembly I

  #62 opened 4 months ago by kmhandley
  2

• 2 - QC host filtering

  #61 opened 4 months ago by kmhandley
  3

• `vcontact2_tax_predict.py` not working on vConTACT2 output

  #59 opened 4 months ago by JSBoey
  2

• Update coverage normalisation script(s)

  #32 opened 4 months ago by mlhoggard
  6

• DIAMOND/2.1.9-GCC-11.3.0 doesn't run in array

  #53 opened 4 months ago by JSBoey
  2

• Update viral processing steps to VirSorter2 and DRAM-v

  #31 opened 4 months ago by mlhoggard
  2

• MaxBin missing libraries in milan but not in large

  #36 opened 4 months ago by JSBoey
  5

• MetaBAT/2.17 `jgi_summarise_bam_contig_depth` produces nonsensical outputs

  #54 opened 4 months ago by JSBoey
  0

• GPU for SignalP6

  #52 opened 5 months ago by JSBoey
  0

• Migrate the repo to MkDocs-material

  #29 opened 2 years ago by DininduSenanayake
  0

• Update R package when running DAS_Tool module OR update DAS_module

  #34 opened 2 years ago by JSBoey
  4

• Update Software versions and corresponding databases

  #26 opened 2 years ago by DininduSenanayake
  1

• Create MGSS2021_Archive branch

  #33 opened 2 years ago by DininduSenanayake
  0

• Find and replace all Slurm variables from their abbreviated format to expanded

  #27 opened 2 years ago by DininduSenanayake
  0

• Install Signal-P

  #30 opened 2 years ago by DininduSenanayake
  5

• Upgrade DRAM

  #28 opened 2 years ago by DininduSenanayake
  3

• workshop info

  #25 opened 3 years ago by khemlalnirmalkar
  0