Bedparse is a simple python module and CLI tool to perform common operations on BED files.
It offers the following functionality:
- Filtering of transcripts based on annotations
- Joining of annotation files based on transcript names
- Conversion from GTF to BED format
- Conversion from UCSC to Ensembl chromosome names (and viceversa)
- Conversion from bed12 to bed6
- Promoter reporting
- Intron reporting
- CDS reporting
- UTR reporting
pip install bedparse