josenavas/American-Gut
American Gut open-access data and IPython notebooks
Developer Profile
josenavas
Discovered public repositories for josenavas in the GitHub catalog.
josenavas/ale-vj-qt2011
Automatically exported from code.google.com/p/ale-vj-qt2011
josenavas/deblur
Public repository.
josenavas/emp
Data, code and analysis results for the Earth Microbiome Project.
josenavas/metoo
Staging ground for QIIME 2 development
josenavas/mustached-octo-ironman
Easy dispatched compute via in a Tornado environment
josenavas/StrainDB
StrainDB: A database to store strain genomes
josenavas/glowing-dangerzone
Easy SQL connection handlers
josenavas/sortmerna
This is ongoing development of SortMeRNA. For the latest stable release, see http://bioinfo.lifl.fr/RNA/sortmerna/.
josenavas/qiime_web_app
QIIME, EMP and American Gut Web Application
josenavas/american-gut-web
The website for the American Gut Project participant portal
josenavas/burrito
Python framework for controlling command-line applications.
josenavas/qiime-ci
Support files for the QIIME continuous integration system.
josenavas/navasetal
R markdown supplementary files for navas et al
josenavas/brokit
Application controllers for command line bioinformatics applications
josenavas/PipeClust
MPI-based sequence clusterer
josenavas/ClusterUtils
Utilities to submit and keep track of running jobs in a PBS cluster.
josenavas/QiiTa-ware
pyqi commands and middleware
josenavas/scikit-bio
Tools for biological data analysis in python.
josenavas/QiiTa-pet
QiiTa web front end
josenavas/QiiTa
QiiTa databasing effort
josenavas/emperor
Emperor a tool for the analysis and visualization of large microbial ecology datasets
josenavas/FastUnifrac
Repository for the FastUnifrac site code.
josenavas/pyqi
Tools for developing and testing command line interfaces in Python.
josenavas/pycogent
PyCogent: Official repository for software and unit tests
josenavas/qiime-deploy
Tool to easily install QIIME on Linux systems
josenavas/qiime-deploy-conf
configuration files to be used with the qiime-deploy packages
josenavas/biom-format
The Biological Observation Matrix (BIOM) Format Project
josenavas/SCGM
Public repository.
josenavas/QIIME-Scaling
The goal of this project is to produce an estimator for runtime and memory consumption: (runtime, memory) = f(script_name, number_of_observations, number_of_samples, sparsity). This estimator will be based off of empirical results from standard test data sets (to be created, described below) and validated with real world datasets. Once in place, we can then use this estimator to a) improve resource utilization on both growler and compy b) determine what scripts to target for optimization.
josenavas/qiime-galaxy
Repository for QIIME/Galaxy integration code.
josenavas/qiime_test_data
Test input and output for QIIME scripts.
josenavas/qiime
Quantitative Insights Into Microbial Ecology (QIIME): Official repository for software and unit tests