Workflow Type: Galaxy
Open
Preprocessing of raw SARS-CoV-2 reads. More info can be found at https://covid19.galaxyproject.org/genomics/
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Inputs
ID | Name | Description | Type |
---|---|---|---|
0_Input Dataset | n/a | n/a |
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1_Input Dataset | n/a | n/a |
|
Steps
ID | Name | Description |
---|---|---|
10_MultiQC | n/a | n/a |
11_Filter SAM or BAM, output SAM or BAM | n/a | n/a |
12_Filter SAM or BAM, output SAM or BAM | n/a | n/a |
13_MergeSamFiles | n/a | n/a |
14_MergeSamFiles | n/a | n/a |
15_Samtools fastx | n/a | n/a |
16_Samtools fastx | n/a | n/a |
2_Faster Download and Extract Reads in FASTQ | n/a | n/a |
3_Faster Download and Extract Reads in FASTQ | n/a | n/a |
4_fastp | n/a | n/a |
5_NanoPlot | n/a | n/a |
6_FastQC | n/a | n/a |
7_Map with minimap2 | n/a | n/a |
8_MultiQC | n/a | n/a |
9_Map with BWA-MEM | n/a | n/a |
Version History
Version 1 (earliest) Created 10th Apr 2020 at 11:20 by Bert Droesbeke
Added/updated 3 files
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Creators and Submitter
Creators
Not specifiedAdditional 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: 4751 Downloads: 775 Runs: 3
Created: 10th Apr 2020 at 11:20
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None