NAME

MyShortRead::MyShortRead - My Perl library to deal with nextgen short read data.

SYNOPSIS

  use MyShortRead::MyShortRead;

  compare2
  find_lowest_list
  overlap2
  strGCPercent
  bin_genome_count
  bin_genome_count_direction
  read_chrlen_tbl
  read_chrlen_ordered
  sep_chrom_bed
  del_chrfile
  order_chr

DESCRIPTION

  This module contains a few functions that I created to perform some operations on 
  short read data from next-generation sequencing machines. They include separate a
  BED file according to chromosomes; bin genome and count the number of reads; compare
  two genomic intervals and determine which one comes first(on the left side).

EXPORT

  compare2
  find_lowest_list
  overlap2
  strGCPercent
  bin_genome_count
  bin_genome_count_direction
  read_chrlen_tbl
  read_chrlen_ordered
  sep_chrom_bed
  del_chrfile
  order_chr

SEE ALSO

  Nothing else so far.

AUTHOR

Li Shen, <li.shen@mssm.edu>

COPYRIGHT AND LICENSE

Copyright (C) 2010 by Li Shen

This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself, either Perl version 5.8.8 or, at your option, any later version of Perl 5 you may have available.