Pfw weights sequences of a multiple sequence alignment to correct for sampling bias. pfw computes new weights for individual sequences in a multiple sequence alignment using the method of Sibbald and Argos (1990). The file containing the multiple sequence alignment (*ms_file*) must be either in MSF format as generated by GCG programs or by readseq (checksums are ignored) or in MSA format as produced by psa2msa(1). If *-* is specified instead of a filename, the multiple sequence alignment is read from the standard input. pfw writes a new multiple sequence alignment with modified weights in either MSF or MSA format to the standard output.
Parent program: pftools
PFTools is a collection of programs supporting the generalized profile format and search method of PROSITE.