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BamUtil

762 bytes added, 22:49, 12 November 2017
Release of just BamUtil (does not include libStatGen)
To install an official release, unpack the downloaded file (tar xvf), cd into the bamUtil_x.x.x directory and type make all.
'''BamUtil.1.0.13 14 Release Notes'''* BamUtil Version 1.0.14 - Released 7/8/2015** https://github.com/statgen/bamUtil/archive/v1.0.14.tar.gz** Requires, but does not include: [[LibStatGen Download#Official Releases|libStatGen version 1.0.14]]** Update [[BamUtil: trimBam|trimBam]]*** Add option to soft clip (-c) instead of trimming** Update [[BamUtil: clipOverlap|clipOverlap]]*** Add option to mark reads as unmapped if they are entirely clipped** Update to [[BamUtil: bam2FastQ|bam2FastQ]]*** Add option to gzip the output files*** Add option to split Read Groups into separate fastq files*** Add option to get the quality from a tag** Update [[BamUtil: recab|recab]]*** Update to ignore ref 'N' when building the recalibration table*** Add ability to bin** Add Dedup_LowMem tool '''Older Releases'''
* BamUtil Version 1.0.13 - Released 2/20/2015
** https://github.com/statgen/bamUtil/archive/v1.0.13.tar.gz
** Requires, but does not include: [[LibStatGen Download#Official Releases|libStatGen version 1.0.13]]
** Makefule Makefile Updates
*** Improve logic to determine actual path for the library
*** Update to append to USER_COMPILE_VARS even if specified on the command line
*** Fix MD5sum calculation to convert fasta to uppercase prior to calculating
'''Older Releases'''
* [[Media:BamUtil.1.0.12.tgz|BamUtil.1.0.12.tgz‎]] - Released 5/14/2014
** Requires, but does not include: [[LibStatGen Download#Official Releases|libStatGen version 1.0.12]]