compile ( keepList,  v=0 )

take a list of integers that are indices into a list or string and denote elemenst to be extracted and transform it into a list containing one- and two-tuples to achieve extraction with fewer steps using slicing (with two-tuples) and direct indices (with one-tuples)

main ()

%(filename)s

Removes columns from a sequence alignment in which a specified percent of sequences contain gap characters. Useful for preparing alignments for phylogenetic analysis.

{{out name of outfile. Prints to stdout by default.}} {{h Prints documentation.}} {{v verbosity 1}} {{c Maximum percent of sequences permitted to have a gap character. for example cutoff=5 results in the removal of columns containing >5%% gaps 100}} {{version print version info and exit}}

%(version)s