Workflow Type: Common Workflow Language
Open
Stable
Exome Alignment Workflow
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Inputs
ID | Name | Description | Type |
---|---|---|---|
fastq_files | n/a | List of paired-end input FASTQ files |
|
reference_fasta | n/a | Compress FASTA files with the reference genome chromosomes |
|
readgroup | n/a | Parsing header which should correlate to FASTQ files |
|
sample_name | n/a | Sample name |
|
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 |
|
Version History
Version 1 (earliest) Created 19th Nov 2021 at 10:06 by Laura Rodriguez-Navas
Added/updated 1 files
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Created: 19th Nov 2021 at 10:06
Last updated: 19th Nov 2021 at 10:08
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