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d7a3286a9a
* Ignore vim tmp files * Added hmmalign module, not yet tests * Test output * Replaced functions.nf for hmmalign with upstream * Update software/hmmer/hmmalign/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update software/hmmer/hmmalign/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update software/hmmer/hmmalign/meta.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update tests/software/hmmer/hmmalign/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update tests/software/hmmer/hmmalign/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update tests/software/hmmer/hmmalign/test.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update tests/config/pytest_software.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> * Update software/hmmer/hmmalign/main.nf Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
45 lines
1.2 KiB
YAML
45 lines
1.2 KiB
YAML
name: hmmer_hmmalign
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description: hmmalign from the HMMER suite aligns a number of sequences to an HMM profile
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keywords:
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- alignment
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tools:
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- hmmer:
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description: Biosequence analysis using profile hidden Markov models
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homepage: http://hmmer.org/
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documentation: http://hmmer.org/documentation.html
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tool_dev_url: None
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doi: "http://dx.doi.org/10.1371/journal.pcbi.1002195"
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licence: ['BSD']
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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' ]
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- fasta:
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type: file
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description: Amino acid or nucleotide fasta file, gzipped or not
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pattern: "*.{fna,fna.gz,faa,faa.gz,fasta,fasta.gz,fa,fa.gz}"
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- hmm:
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type: file
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description: HMM file
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pattern: "*.hmm"
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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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- version:
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type: file
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description: File containing software version
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pattern: "*.{version.txt}"
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- sthlm:
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type: file
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description: Multiple alignment in gzipped Stockholm format
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pattern: "*.sthlm.gz"
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authors:
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- "@erikrikarddaniel"
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