Utilities for lifting over genome coordinates in C. elegans. Currently supports:
- BCF/VCF
- GFF
- Bed
- Custom (specify chromosome, start position, and optionally end position)
Makes use of remap_gff_between_releases.pl
by Gary Williams.
Usage:
liftover <file> <release1> <release2> (bcf|vcf|gff|bed)
liftover <file> <release1> <release2> <chrom_col> <start_pos_column> [<end_pos_column>] [options]
Options:
-h --help Show this screen.
--delim=<delim> File Delimiter; Default is a tab [default: TAB].
pip install https://github.com/AndersenLab/liftover-utils/archive/v0.1.tar.gz