RoiFeatureProjection

Compute the projection of a ROI file to regions from a BED or GFF file. The result is a ROI file where each interval from the BED/GFF/GTF file that overlapped with one input ROI file is a region of interest, with the coverage counts projected to the new region of interest.

Web Documentation for RoiFeatureProjection

Input ports

1. Type: URI Object
   in-roi [roi,roi.bgzf,roi.gz]
   ROI file to read. [roi,roi.bgzf,roi.gz]
2. Type: URI Object
   in-features [bed,bed.bgzf,bed.gz,gff,gff.bgzf,gff.gz,gff3,gff3.bgzf,gff3.gz,gtf,gtf.bgzf,gtf.gz]
   BED, GFF, or GTF file to read. [bed,bed.bgzf,bed.gz,gff,gff.bgzf,gff.gz,gff3,gff3.bgzf,gff3.gz,gtf,gtf.bgzf,gtf.gz]
3. Type: URI Object
   genome [fasta,fa]
   Path to FASTA file with genome; optional. When given, this is used for computing the overall region's C+G content. [fasta,fa,opt.]

Output ports

1. Type: URI Object
   out-roi [roi]
   ROI file to write. [roi]