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64 lines
1.8 KiB
YAML
64 lines
1.8 KiB
YAML
name: "kat_hist"
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description: Creates a histogram of the number of distinct k-mers having a given frequency.
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keywords:
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- k-mer
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- histogram
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- count
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tools:
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- "kat":
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description: "KAT is a suite of tools that analyse jellyfish hashes or sequence files (fasta or fastq) using kmer counts"
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homepage: https://www.earlham.ac.uk/kat-tools
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documentation: https://kat.readthedocs.io/en/latest/index.html
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tool_dev_url: https://github.com/TGAC/KAT
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doi: http://bioinformatics.oxfordjournals.org/content/early/2016/10/20/bioinformatics.btw663.abstract
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licence: "['GPL v3']"
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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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- reads:
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type: file
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description: |
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List of input FastQ files of size 1 and 2 for single-end and paired-end data,
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respectively.
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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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- hist:
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type: file
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description: KAT histogram of k-mer counts
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pattern: "*.hist"
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- json:
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type: file
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description: KAT histogram summary of distance analysis
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pattern: "*.hist.dist_analysis.json"
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- png:
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type: file
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description: KAT plot of k-mer histogram in PNG format
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pattern: "*.png"
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- ps:
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type: file
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description: KAT plot of k-mer histogram in PS format
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pattern: "*.ps"
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- pdf:
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type: file
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description: KAT plot of k-mer histogram in PDF format
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pattern: "*.pdf"
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- jellyfish_hash:
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type: file
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description: Jellyfish hash file
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pattern: "*-hist.jf*"
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authors:
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- "@mahesh-panchal"
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