Alter or Add Read Group Tags to BAM Files with C++
git clone --recursive https://github.com/dantaki/rgged.git
Compile with CMake
cd rgged/
mkdir build && cd build/
cmake .. && make
rgged --help
rgged Alter or Add Read Group (RG) Information
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WARNING! Existing Read Groups will be erased!
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Version: 1.0 Author: Danny Antaki <dantaki@ucsd.edu>
Usage: rgged -i <in.bam> -id <ID> -lb <LIBRARY> -pl <PLATFORM> -sm <SAMPLE> >output.bam
Options:
-i Input: BAM filename
-id ID
-lb Library
-pl Platform
-sm Sample
rgged uses BamTools
BamTools Copyright (c) 2009-2010 Derek Barnett, Erik Garrison, Gabor Marth, Michael Stromberg
Notice: BamTools requires zlib.
MIT License
Copyright (c) 2017 Danny Antaki
Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:
The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.
THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.