| Name | Description | Link |
|---|
| ppReg | Get PhastCons score from binary file | /panfs/pan1.be-md.ncbi.nlm.nih.gov/devdcode/common/bin/ppReg |
| LiftOver | Converts genome coordinates and genome annotation files between assemblies | http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/liftOver |
| nibFrag | Extract part of a nib file as .fa | /netmnt/dcode-brain/bin/nibFrag |
| mast | Search biological sequence databases for sequences that contain one or more of a group of known motifs | /panfs/pan1.be-md.ncbi.nlm.nih.gov/devdcode/ivan/ExternalSoftware/Motif_Search_Tools/meme/bin/mast |