jvarkit

ReduceBlast

Reduce the size of XML blast, by removing iterations that have no Hit

Usage

This program is now part of the main jvarkit tool. See jvarkit for compiling.

Usage: java -jar dist/jvarkit.jar reduceblast  [options] Files

Usage: reduceblast [options] Files
  Options:
    -h, --help
      print help and exit
    --helpFormat
      What kind of help. One of [usage,markdown,xml].
    -message, --message
      Keep <Iteration_message>
      Default: false
    -o, --output
      Output file. Optional . Default: stdout
    -stats, --stats
      Keep <Iteration_stats>
      Default: false
    --version
      print version and exit

Keywords

• blast
• xml

Source code

https://github.com/lindenb/jvarkit/tree/master/src/main/java/com/github/lindenb/jvarkit/tools/blast/ReduceBlast.java

Contribute

• Issue Tracker: http://github.com/lindenb/jvarkit/issues
• Source Code: http://github.com/lindenb/jvarkit

License

The project is licensed under the MIT license.

Citing

Should you cite reduceblast ? https://github.com/mr-c/shouldacite/blob/master/should-I-cite-this-software.md

The current reference is:

http://dx.doi.org/10.6084/m9.figshare.1425030

Lindenbaum, Pierre (2015): JVarkit: java-based utilities for Bioinformatics. figshare. http://dx.doi.org/10.6084/m9.figshare.1425030

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