bulksoil / MiSeqTools

Tools for processing MiSeq fastq files for input into MED or QIIME

MiSeqTools

This is a collection of scripts for processing fastq files to analyze 16S rRNA data using QIIME or minimum entropy decomposition (MED).

Getting it up and running

You can get these scripts by typing this into terminal:

git clone https://github.com/bulksoil/MiSeqTools.git

You will need to acquire pandaseq to form the overlap on the paired end reads. Assuming you are running Ubuntu just put this into the command line.

sudo apt-add-repository ppa:neufeldlab/ppa && sudo apt-get update && sudo apt-get install pandaseq