exome-alignment
Version 1

Workflow Type: Common Workflow Language
Stable

Exome Alignment Workflow

Inputs

ID Name Description Type
fastq_files n/a List of paired-end input FASTQ files
  • File[]
reference_fasta n/a Compress FASTA files with the reference genome chromosomes
  • File
readgroup n/a Parsing header which should correlate to FASTQ files
  • string
sample_name n/a Sample name
  • string

Steps

ID Name Description
gunzip n/a n/a
picard_dictionary n/a n/a
cutadapt n/a n/a
bwa_index n/a n/a
samtools_faidx n/a n/a
bwa_mem n/a n/a
samtools_sort n/a n/a
picard_markduplicates n/a n/a

Outputs

ID Name Description Type
sorted_bam n/a Sorted aligned BAM file
  • File

Version History

Version 1 (earliest) Created 19th Nov 2021 at 10:06 by Laura Rodriguez-Navas

Added/updated 1 files


Open master 0b2bfbc
help Creators and Submitter
Activity

Views: 566   Downloads: 18

Created: 19th Nov 2021 at 10:06

Last updated: 19th Nov 2021 at 10:08

Last used: 7th Oct 2022 at 11:15

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Total size: 2.19 KB
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