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