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go-dag-summaryp - Online in the Cloud

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This is the command go-dag-summaryp that can be run in the OnWorks free hosting provider using one of our multiple free online workstations such as Ubuntu Online, Fedora Online, Windows online emulator or MAC OS online emulator

PROGRAM:

NAME


go-dag-summary - summarises an ontology

SYNOPSIS


go-dag-summary ontology/gene_ontology.obo

DESCRIPTION


Summarises an ontology

ARGUMENTS


-e ERRFILE

writes parse errors in XML - defaults to STDERR (there should be no parse errors in well
formed files)

-p FORMAT

determines which parser to use; if left unspecified, will make a guess based on file
suffix. See below for formats

-use_cache
If this switch is specified, then caching mode is turned on.

With caching mode, the first time you parse a file, then an additional file will be
exported in a special format that is fast to parse. This file will have the same filename
as the original file, except it will have the ".cache" suffix.

The next time you parse the file, this program will automatically check for the existence
of the ".cache" file. If it exists, and is more recent than the file you specified, this
is parsed instead. If it does not exist, it is rebuilt.

OUTPUT


One row per ontology

Each row has the following columns

input filename
total no of terms
total no of relationships
total no of paths
avg no of paths per term (p/t)
maximum no of paths for any term
ID of term with maximum no of paths
NOTE: obsolete terms are not included

DOCUMENTATION
<http://www.godatabase.org/dev>

SEE ALSO
<http://www.fruitfly.org/~cjm/obol/doc/go-complexity.html>

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