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e745e167c1
* fix yml formatting * allow fastq.gz and fq.gz as file input, add meta.yml and test * fix yaml files * Revert "allow fastq.gz and fq.gz as file input, add meta.yml and test" This reverts commit 34002d7a7a8c7f7bb4600c3377f35c87849f71a4. * prettier magic! * fix comments for yamllint * remove node version number * fix linting errors Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
55 lines
1.3 KiB
YAML
55 lines
1.3 KiB
YAML
name: pydamage_analyze
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description: Damage parameter estimation for ancient DNA
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keywords:
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- ancient DNA
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- aDNA
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- de novo assembly
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- filtering
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- damage
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- deamination
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- miscoding lesions
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- C to T
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- palaeogenomics
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- archaeogenomics
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- palaeogenetics
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- archaeogenetics
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tools:
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- pydamage:
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description: Damage parameter estimation for ancient DNA
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homepage: https://github.com/maxibor/pydamage
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documentation: https://pydamage.readthedocs.io/
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tool_dev_url: https://github.com/maxibor/pydamage
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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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- bam:
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type: file
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description: BAM/CRAM/SAM file
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pattern: "*.{bam,cram,sam}"
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- bai:
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type: file
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description: BAM/CRAM/SAM index file
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pattern: "*.{bai,crai,sai}"
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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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- csv:
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type: file
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description: PyDamage results as csv files
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pattern: "*.csv"
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authors:
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- "@maxibor"
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