NAME

starchstrip - manual page for starchstrip 2.4.41+dfsg

DESCRIPTION

starchstrip

: citation: http://bioinformatics.oxfordjournals.org/content/28/14/1919.abstract
: https://doi.org/10.1093/bioinformatics/bts277

USAGE: starchstrip [ --include | --exclude ] <chromosome-list> <starch-file>

: * Add either the --include or --exclude argument to filter the specified
: <starch-file> for chromosomes in <chromosome-list> for inclusion or exclusion, respectively. Note that you can only specify either inclusion or exclusion.
: * The <chromosome-list> argument is a comma-separated list of chromosome names
: to be included or excluded. This list is a *required* argument to either of the two --include and --exclude options.
: * The output is a Starch archive containing those chromosomes specified for inclusion
: or what chromosomes remain after exclusion from the original <starch-file>. A new metadata payload is appended to the output Starch archive.
: * The output is written to the standard output stream -- use the output redirection
: operator to write the result to a regular file, e.g.:
: $ starchstrip --exclude chrA,chrB,chrC in.starch > out.starch
: * If a specified chromosome is not in the input Starch archive, it will be ignored
: during processing.
: * Filtering simply copies over raw bytes from the input Starch archive and
: no extraction or recompression is performed. Use 'starchcat' to update the metadata, if new attributes are required.
: Process Flags -------------------------------------------------------------------------- --include <chromosome-list> Include specified chromosomes from <starch-file>.

--exclude <chromosome-list>: Exclude specified chromosomes from <starch-file>.
--version: Show binary version.
--help: Show this usage message.