complexmanipulate

This tool contains three methods to manipulate complex sets:
  1. score cutoff - delete complexes whose average inner-complex edge score is below a given threshold (requires a scores network)
  2. decompose - delete edges below a given threshold, complexes may decompose into subcomplexes (requires a scores network)
  3. size cutoff - delete all complexes which consist of more or less than a given number of proteins

Call the tool without any command line arguments to get detailed information about the parameters for this program.

See also:

Example calls

cmdline.sh complexmanipulate -i data/complexes/mips_complexes.txt -o testout -scorecut 0.5 -scorenet data/scores/bootstrap_combined.txt.gz

cmdline.sh complexmanipulate -i data/complexes/mips_complexes.txt -o testout -decompose 0.5 -scorenet data/scores/bootstrap_combined.txt.gz -size 2-




ProCope documentation