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47 lines
1.1 KiB
YAML
47 lines
1.1 KiB
YAML
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name: "samtools_fasta"
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description: Converts a SAM/BAM/CRAM file to FASTA
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keywords:
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- bam
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- sam
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- cram
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- fasta
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tools:
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- "samtools":
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description: "Tools for dealing with SAM, BAM and CRAM files"
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homepage: "http://www.htslib.org"
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documentation: "https://www.htslib.org/doc/samtools-fasta.html"
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tool_dev_url: "https://github.com/samtools/samtools"
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doi: "10.1093/bioinformatics/btp352"
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licence: "['MIT']"
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input:
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# Only when we have meta
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- input:
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type: file
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description: BAM/CRAM/SAM file
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pattern: "*.{bam,cram,sam}"
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output:
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#Only when we have meta
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- meta:
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type: map
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description: |
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Groovy Map containing sample information
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e.g. [ id:'test', single_end:false ]
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- versions:
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type: file
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description: File containing software versions
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pattern: "versions.yml"
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- fasta:
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type: file
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description: compressed FASTA file
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pattern: "*.fasta.gz"
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authors:
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- "@priyanka-surana"
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