From Bioinformatics.Org Wiki
- autoseq - a small package of base calling software for ABI automated DNA sequencers
- phrap - a program for assembling shotgun DNA sequence data
- phred - Phred reads DNA sequencer trace data, calls bases, assigns quality values to the bases, and writes the base calls and quality values to output files.
- Staden Package - This is a free to academics (charge for commercial users) package including sequence assemble, trace viewing/editing and sequence analysis tools. It also includes a GUI to the free EMBOSS suite.