| ALIGNMENT GLOBAL

Global sequence alignment

Program name | Description
--- | ---
est2genome | Align EST and genomic DNA sequences
needle | Needleman-Wunsch global alignment
stretcher | Finds the best global alignment between two sequences
esim4 | Align an mRNA to a genomic DNA sequence
alignrunner | Align sequence pairs in a directory
comparator | Compare contact scores of two sequence alignments
contactalign | Damian Counsell's experimental 2.5-D alignment algorithm
nawalign | Damian Counsell's NW implementation
nawalignrunner | Nawalign all sequence pairs in a directory
needlerunner | Needle all sequence pairs in a directory
scorer | Score alignments using structural alignments
scorerrunner | SCORER for ordered pairs of substituted seqs
substitute | Substitute matches into a template
substituterunner | Run SUBSTITUTE on a directory of traces