Genomics - PE Variation
Version 1

Analysis of variation within individual COVID-19 samples using Illumina Paired End data. More info can be found at https://covid19.galaxyproject.org/genomics/

Inputs

ID Name Description Type
#main/GenBank file n/a n/a File
#main/Paired Collection (fastqsanger) n/a n/a File

Steps

ID Name Description
#main/10_Realign reads
#main/11_MultiQC
#main/12_Call variants
#main/13_SnpEff eff
#main/14_SnpSift Extract Fields
#main/15_Collapse Collection
#main/2_SnpEff build
#main/3_fastp
#main/4_Map with BWA-MEM
#main/5_MultiQC
#main/6_Filter SAM or BAM, output SAM or BAM
#main/7_Samtools stats
#main/8_MarkDuplicates
#main/9_MultiQC
help Creators and Submitter
Creators
  • Dannon Baker
  • Marius van den Beek
  • Dave Bouvier
  • John Chilton
  • Nate Coraor
  • Frederik Coppens
  • Bert Droesbeke
  • Ignacio Eguinoa
  • Simon Gladman
  • Björn Grüning
  • Delphine Larivière
  • Gildas Le Corguillé
  • Andrew Lonie
  • Nicholas Keener
  • Sergei Kosakovsky Pond
  • Wolfgang Maier
  • Anton Nekrutenko
  • James Taylor
  • Steven Weaver
Submitter
License
Activity

Views: 219   Downloads: 12

Created: 10th Apr 2020 at 13:52

Last used: 27th Sep 2020 at 04:39

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