Gqiime: GUI for open-source bioinformatics pipeline

QIIME (canonically pronounced chime) stands for Quantitative Insights Into Microbial Ecology.
QIIME is an open-source bioinformatics pipeline for performing microbiome analysis from raw DNA sequencing data. QIIME is designed to take users from raw sequencing data generated on the Illumina or other platforms through publication quality graphics and statistics. This includes demultiplexing and quality filtering, OTU picking, taxonomic assignment, and phylogenetic reconstruction, and diversity analyses and visualizations. QIIME has been applied to studies based on billions of sequences from tens of thousands of samples.

The Project

I  had been working on qiime for quite some time now and I had noticed that sometimes us guys are having trouble working with qiime commands. I myself found commands to be confusing and too many options do not help either. In addition to that organizing all the generated files is also a huge issue. I am trying to create something that hopefully helps with these issues and makes it easy for us to work with qiime. The idea is to create a graphical user interface so we do not have to remember and type in commands every single time. Moreover it can also automate the entire project pipeline so that us can focus on other important stuff rather than managing large number of project files and
initial prototype at :

The Home Page

Creating a Qiime Project

Menu Options


Generating Commands


Creating automatic qiime pipeline

Downloading Pipeline Shell file

© GI Lab, Texas A&M University 2014 | Created By : Piyush Tripathi(

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