complexscores
Calculates scores of complexes using a given scores network. A complex
score is the average edge score of all inner-complex protein
interactions. Thus to calculate a complex score n*(n-1)/2 values
are averaged where missing edges get an implicit weight of 0.
Call the tool without any command line arguments to get detailed information about the parameters for this program.
See also:
Example calls
- Calculate scores for all complexes in the MIPS reference complex set using the bootstrap scores network
cmdline.sh complexscores -i data/complexes/mips_complexes.txt -net data/scores/bootstrap_combined.txt.gz
- same as above but this time we only output the average score (
-avg
)
- for average calculation the complex scores are weighted by the complex size (
-weighted
)
./cmdline.sh complexscores -i data/complexes/mips_complexes.txt -net data/scores/bootstrap_combined.txt.gz -avg -weighted