Genpak is a small set of utilities designated to process DNA, RNA, and protein sequences in a very Un*x-like manner. This way, Genpak programs can be combined using pipes and redirections, as well as easily incorporated into CGI scripts. The utilities include a program for calculating GC content, Tm, translating DNA/RNA sequences into protein sequences, quick sequence retrieval, random sequence generation, and finding promoter sequences using a Hertz matrix.
Release Notes: Two new utilities were added. One of them adjusts codon usage of an ORF to reflect an optimal codon usage of a group of genes, and the other one is a tool for calculating the codon usage deviation from a population of genes. Some minor bugs were also fixed.
Release Notes: This release fixes the broken gp_tm, the partly broken gp_primer, and other minor problems.
Release Notes: This release adds a program for predicting oligonucleotide stem-loop structures and dimeres.
Release Notes: Major bugfixes, code cleanups, and some new features.
Release Notes: Many bugs have been corrected, some utilities have been rewritten, and three new programs have been added.