Convert genomic BAM/SAM files to transcriptomic BAM/RAD files.
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
[ id:'test', single_end:false ]
bam{:bash}
:file
Name-Sorted BAM/CRAM/SAM file
*.{bam,cram,sam}
index{:bash}
:directory
Annotation index created by mudskipper/index
gtf{:bash}
Annotation file
*.{gtf,gff,gff3}
rad{:bash}
:string
File type
${prefix}.bam{:bash}
Sorted BAM file
*.bam
${prefix}.rad{:bash}
RAD file
*.rad
versions{:bash}
versions.yml{:bash}
File containing software versions
versions.yml
mudskipper is a tool for converting genomic BAM/SAM files to transcriptomic BAM/RAD files.
