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loadOrthologMapping.pl

Script to parse OG mappings and load them into Smash database.

Synopsis

        loadOrthologMapping.pl [options]

Options

--genepred

Name of geneprediction whose mappings should be loaded.

--string

Version of the string database used in the mapping.

--help

Prints this manual.

Description

loadOrthologMapping.pl is a wrapper script that loads the OG mappings of predicted proteins to the database. It is run as:

        loadOrthologMapping.pl --genepred=MC20.MG10.AS2.GP1 --string=string8

Required files

loadOrthologMapping.pl requires the following files:

ogmapping file from doOrthologMapping.pl

File containing results from OG mapping of the predicted proteins against STRING orthologous groups from the given version.

This file is expected to be in the gene prediction directory. To see the location of this directory for a given gene prediction, run:

        perl showLocations.pl --item=MC10.MG23.AS1.GP2
The file MC10.MG23.AS1.GP2.eggnogmapping.txt should exist in that location.

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