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16e8d21477
* add nanoplot * add Nanopore 100 read subset bam and fastq * add nanoplot module and sequencing_summary.txt * Update pytest_software.yml * Update main.nf * test directory path * testing one output file * Update main.nf * fix typo * remove path to test outputs (it worked locally) * use test_data.config in test * add meta.yml * allowing either summary.txt or fastq.gz inputs * fix linting and test.yml * test whether github check can catch the output * add summary.txt test output paths * check Nanoplot-report.html output
58 lines
1.5 KiB
YAML
58 lines
1.5 KiB
YAML
name: nanoplot
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description: Run NanoPlot on nanopore-sequenced reads
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keywords:
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- quality control
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- qc
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- fastq
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- sequencing summary
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- nanopore
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tools:
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- nanoplot:
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description: |
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NanoPlot is a tool for ploting long-read sequencing data and
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alignment.
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homepage: http://nanoplot.bioinf.be
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documentation: https://github.com/wdecoster/NanoPlot
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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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- fastq:
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type: file
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description: |
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List of input basecalled-FastQ files.
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- summary_txt:
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type: file
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description: |
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List of sequenicng_summary.txt files from running basecalling.
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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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- html:
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type: file
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description: NanoPlot report
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pattern: "*{.html}"
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- png:
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type: file
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description: Plots generated by NanoPlot
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pattern: "*{.png}"
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- txt:
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type: file
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description: Stats from NanoPlot
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pattern: "*{.txt}"
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- log:
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type: file
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description: log file of NanoPlot run
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pattern: "*{.log}"
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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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authors:
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- "@drpatelh"
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- "@yuukiiwa"
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