April 18th, 2013Fix bugs in several scripts (like bam_stat.py) that gives "OverflowError":
· File "csamtools.pyx", line 2308, in csamtools.AlignedRead.tags.__get__ (lib/pysam/csamtools.c:21058)
· OverflowError: unsigned byte integer is less than minimum
February 22nd, 2013
· Fix problems with installing bx-python
· Fix mislabeled figure legends in read duplication plot.
January 4th, 2013
· Small bugs fixed.
August 31st, 2012
· No improvements. Just fix several small bugs.
August 20th, 2012
· New module (split_bam.py) to estimate amount of ribosome RNA reads.
· New module (read_hexamer.py) to estimate hexamer frequency.
July 28th, 2012
· Add normalization option to bam2wig.py. With this option, user can normalize different sequencing depth into the same scale when converting BAM into wiggle format.
· Add another script. geneBody_coverage2.py. This script uses BigWig instead of BAM as input, and requires much less memory (~ 200M)