Metaproject for RDP Tools

This project includes the modules from the RDP (Classifier, Clustering, SequenceMatch, ProbeMatch, InitialProcessing, FrameBot, ReadSeq, Xander) and all their dependencies. Don’t click “Download ZIP” button, instead, copy the cloneURL and type git clone cloneURL

After cloning this repository enter the commands

Initial Project Set Up

$gitsubmoduleinitgit\; submodule\; init$ git submodule update

then type ‘make’

Jars are placed in the main directory, you can run them with

java -jar classifier.jar|Clustering.jar|…

Building depends on ‘make’ and ‘ant 1.9’.

Update Existing Project

$gitpullgit\; pull$ git submodule update $makecleanmake\; clean$ make

Usage

The RDP Paired-end Reads Assembler used in the publication (Cole et al., 2014 Nucl. Acids Res.) is available at http://rdp.cme.msu.edu/misc/resources.jsp

See each individual tool page or fungene_pipeline (https://github.com/rdpstaff/fungene_pipeline) to run one or multiple tools.