Glossary

pseudo-BED format

A format for specifying genomic annotations based on the BED format. The pseudo-BED format for motif sites uses tab-delimited columns and requires the following column data:

1. Chromosome (chr1, chr2, chr3, etc.)
2. Motif site start position (0-based inclusive indexing)
3. Motif site end position (0-based exclusive indexing)
4. A name for the motif site. Can be any combination of characters or simply .
5. PWM Score: The log-likelihood ratio for the PWM used to predict the given genomic location as a motif site