Description

estimates the parameters for the DRAGstr model

Input

name:type
description
pattern

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

bam{:bash}

:file

BAM/CRAM/SAM file

*.{bam,cram,sam}

bam_index{:bash}

:file

index of the BAM/CRAM/SAM file

*.{bai,crai,sai}

fasta{:bash}

:file

The reference FASTA file

*.{fasta,fa}

fasta_fai{:bash}

:file

The index of the reference FASTA file

*.fai

dict{:bash}

:file

The sequence dictionary of the reference FASTA file

*.dict

strtablefile{:bash}

:file

The StrTableFile zip folder of the reference FASTA file

*.zip

Output

name:type
description
pattern

dragstr_model{:bash}

meta{:bash}

:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]

*.txt{:bash}

:file

The DragSTR model

*.txt

versions{:bash}

versions.yml{:bash}

:file

File containing software versions

versions.yml

Tools

gatk4
Apache-2.0

Genome Analysis Toolkit (GATK4). Developed in the Data Sciences Platform at the Broad Institute, the toolkit offers a wide variety of tools with a primary focus on variant discovery and genotyping. Its powerful processing engine and high-performance computing features make it capable of taking on projects of any size.

gatk.broadinstitute.org/hc/en-us gatk.broadinstitute.org/hc/en-us/articles/360057441571-CalibrateDragstrModel-BETA- https://github.com/broadinstitute/gatk 10.1158/1538-7445.AM2017-3590
maintainer
Github user nvnieuwk
get in touch
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