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4f78d40b11
* New module for fasta_windows
* Upgraded the code and the test to v2.4
* Standard list of Fasta file extensions
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
* Output file (and/or directory) names SHOULD just consist of only ${prefix}
Co-authored-by: James A. Fellows Yates <jfy133@gmail.com>
57 lines
1.5 KiB
YAML
57 lines
1.5 KiB
YAML
name: "fastawindows"
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description: Quickly compute statistics over a fasta file in windows.
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keywords:
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- genome
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- fasta
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- tsv
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- bed
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tools:
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- "fastawindows":
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description: "fasta_windows is a tool written for Darwin Tree of Life chromosomal level genome assemblies. The executable takes a fasta formatted file and calculates some statistics of interest in windows"
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homepage: "https://github.com/tolkit/fasta_windows"
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documentation: "None"
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licence: "['MIT']"
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input:
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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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- fasta:
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type: file
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description: FASTA file
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pattern: "*.{fa,fasta,fna}"
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output:
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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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- freq:
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type: file
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description: TSV file with frequencies and statistics
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pattern: "*.{tsv}"
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- mononuc:
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type: file
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description: TSV file with mononucleotide counts
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pattern: "*.{tsv}"
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- dinuc:
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type: file
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description: TSV file with dinucleotide counts
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pattern: "*.{tsv}"
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- trinuc:
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type: file
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description: TSV file with trinucleotide counts
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pattern: "*.{tsv}"
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- tetranuc:
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type: file
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description: TSV file with tetranucleotide counts
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pattern: "*.{tsv}"
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authors:
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- "@muffato"
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