NAME

USeqInfo.pl

A script to collect basic information about a USeq archive.

SYNOPSIS

USeqInfo.pl [--options...] <file1.useq> <file2.useq ...>

Options:
-c | --chrom
-s | --stat
-v | --version
-h | --help

OPTIONS

The command line flags and descriptions:

--chrom

Print each of the chromosome names and their lengths.

--stat

Print statistics for the scores across the genome, including mean, standard deviation, minimum, and maximum values. If the chromosomes are printed also, then chromosome level statistics are printed as well.

--version

Print the version number.

--help

Display this POD documentation.

DESCRIPTION

This program will present basic information about a USeq archive. Basic metadata from the internal archiveReadMe.txt is listed, including genome version, data type, graph type, description, source data, and date, as well as additional information about the chromosomes, slices, observations, and content.

If desired, chromosome information, including name and length, may also be presented.

If the archive includes score data, it may also optionally present basic statistics across the genome, including mean, standard deviation, minimum, and maximum values. If chromosome information is also presented, then chromosome level statistics are included as well. Note that this may take extra time to calculate, as the entire file must be read. If the archive file is writable by the user, then chromosome and genome statistics are automatically updated in the archiveReadMe.txt file, avoiding future calculations.

AUTHOR

Timothy J. Parnell, PhD
Dept of Oncological Sciences
Huntsman Cancer Institute
University of Utah
Salt Lake City, UT, 84112

This package is free software; you can redistribute it and/or modify it under the terms of the Artistic License 2.0.