Java utilities for Bioinformatics
Since 2015-12-10, I'm slowly moving to a XML-based description of my tools and I'm now using java8 .
I do my best to change all those tools. The documentation in the wiki migh be out of date. If you think you have found an error leave a message at https://github.com/lindenb/jvarkit/issues .
Furthermore, I'm now using the "Apache Commons CLI library" for parsing the command line. For the arguments takings as input more than one parameter, you might have to
add a double dash '--' to separate with the input files.
Pierre Lindenbaum PhD
http://plindenbaum.blogspot.com
see Cite
##Tools
- Most of the tools are listed in the wiki : https://github.com/lindenb/jvarkit/wiki
- Some experimental GATK walkers are also developped: https://github.com/lindenb/jvarkit/blob/master/docs/GatkWalkers.md