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https://github.com/MillironX/nf-core_modules.git
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109 lines
3.4 KiB
YAML
109 lines
3.4 KiB
YAML
name: "merquryfk_merquryfk"
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description: FastK based version of Merqury
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keywords:
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- sort
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tools:
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- "merquryfk":
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description: "FastK based version of Merqury"
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homepage: "https://github.com/thegenemyers/MERQURY.FK"
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documentation: ""
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tool_dev_url: "https://github.com/thegenemyers/MERQURY.FK"
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doi: ""
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licence: "https://github.com/thegenemyers/MERQURY.FK/blob/main/LICENSE"
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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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- fastk_hist:
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type: file
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description: A histogram files from the program FastK
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pattern: "*.hist"
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- fastk_ktab:
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type: file
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description: Histogram ktab files from the program FastK (option -t)
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pattern: "*.ktab*"
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- assembly:
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type: file
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description: Genome assembly files (fasta format)
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pattern: ".fasta"
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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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- stats:
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type: file
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description: Assembly statistics file
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pattern: "*.completeness.stats"
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- bed:
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type: file
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description: Assembly only kmer positions not supported by reads in bed format
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pattern: "*_only.bed"
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- spectra_cn_fl_png:
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type: file
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description: "Unstacked copy number spectra filled plot in PNG format"
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pattern: "*.spectra-cn.fl.png"
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- spectra_cn_ln_png:
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type: file
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description: "Unstacked copy number spectra line plot in PNG format"
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pattern: "*.spectra-cn.ln.png"
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- spectra_cn_st_png:
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type: file
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description: "Stacked copy number spectra line plot in PNG format"
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pattern: "*.spectra-cn.st.png"
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- spectra_asm_fl_png:
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type: file
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description: "Unstacked assembly spectra filled plot in PNG format"
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pattern: "*.spectra-asm.fl.png"
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- spectra_asm_ln_png:
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type: file
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description: "Unstacked assembly spectra line plot in PNG format"
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pattern: "*.spectra-asm.ln.png"
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- spectra_asm_st_png:
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type: file
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description: "Stacked assembly spectra line plot in PNG format"
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pattern: "*.spectra-asm.st.png"
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- spectra_cn_fl_pdf:
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type: file
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description: "Unstacked copy number spectra filled plot in PDF format"
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pattern: "*.spectra-cn.fl.pdf"
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- spectra_cn_ln_pdf:
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type: file
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description: "Unstacked copy number spectra line plot in PDF format"
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pattern: "*.spectra-cn.ln.pdf"
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- spectra_cn_st_pdf:
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type: file
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description: "Stacked copy number spectra line plot in PDF format"
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pattern: "*.spectra-cn.st.pdf"
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- spectra_asm_fl_pdf:
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type: file
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description: "Unstacked assembly spectra filled plot in PDF format"
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pattern: "*.spectra-asm.fl.pdf"
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- spectra_asm_ln_pdf:
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type: file
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description: "Unstacked assembly spectra line plot in PDF format"
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pattern: "*.spectra-asm.ln.pdf"
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- spectra_asm_st_pdf:
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type: file
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description: "Stacked assembly spectra line plot in PDF format"
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pattern: "*.spectra-asm.st.pdf"
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- assembly_qv:
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type: file
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description: "error and qv table for each scaffold of the assembly"
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pattern: "*.qv"
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- qv:
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type: file
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description: "error and qv of each assembly as a whole"
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pattern: "*.qv"
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authors:
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- "@mahesh-panchal"
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