Genomics - PE Variation
Version 1

Workflow Type: Galaxy

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
GenBank file n/a n/a
  • File
Paired Collection (fastqsanger) n/a n/a
  • File

Steps

ID Name Description
10_Realign reads n/a n/a
11_MultiQC n/a n/a
12_Call variants n/a n/a
13_SnpEff eff n/a n/a
14_SnpSift Extract Fields n/a n/a
15_Collapse Collection n/a n/a
2_SnpEff build n/a n/a
3_fastp n/a n/a
4_Map with BWA-MEM n/a n/a
5_MultiQC n/a n/a
6_Filter SAM or BAM, output SAM or BAM n/a n/a
7_Samtools stats n/a n/a
8_MarkDuplicates n/a n/a
9_MultiQC n/a n/a

Version History

Version 1 (earliest) Created 10th Apr 2020 at 13:52 by Bert Droesbeke

Added/updated 3 files


Open master 1f96884
help Creators and Submitter
Creators
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Additional credit

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: 1026   Downloads: 44

Created: 10th Apr 2020 at 13:52

Last used: 25th Jun 2022 at 14:55

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Total size: 56.5 KB
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