README

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
$ git 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
$ git pull
$ git submodule update
$ make 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.