| assembly_screen | A tool for screening assemblies or other pools of sequence for contaminents |
| BLASTaid | A simple interface for byte indexing a WU-BLAST multi-part report for faster access |
| EAnnot | A genome annotation tool that uses experimental evidence |
| EXOR | Filters mutually exclusive alignment events and defines a position specific reciprocal best alignment set. |
| estfreq | Statistical tool for investigating the complexity of pools of sequences |
| FASTAParse | A light-weight parsing module for handling FASTA formatted sequence within larger perl applications |
| gen_bell | Calculates Bell’s polynomials |
| ICAtools | A set of programs that could be of use to anyone doing medium-to-large scale DNA sequencing projects |
| Miropeats | Displays DNA sequence similarity information graphically |
| Overgo Maker | Output overgo sequences ready for ordering from a fasta input file. |
| parse_pfam_stats | Mines statistics on the current Pfam release |
| PCAP | A Whole-Genome Assembly Program |
| Polybayes | Automated analysis of single-nucleotide polymorphism (SNP) discovery in redundant DNA sequences. |
| PolyScan | Automatic indel and SNP detection to the analysis of human re-sequencing data. |
| Semblance | Assess a genome assembly by comparison to finished clones |
