Pinned Repositories
ag-plots
American-Gut
American Gut open-access data and IPython notebooks
bio-playground
miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.
faculty_hiring
University faculty hiring analysis
gene-coverage
Report largest fraction of coverage.
samplotlib
matplotlib hacks
trees
Predicting forest cover
samfway's Repositories
samfway/faculty_hiring
University faculty hiring analysis
samfway/samplotlib
matplotlib hacks
samfway/gene-coverage
Report largest fraction of coverage.
samfway/trees
Predicting forest cover
samfway/ag-plots
samfway/American-Gut
American Gut open-access data and IPython notebooks
samfway/bio-playground
miscellaneous scripts for bioinformatics/genomics that dont merit their own repo.
samfway/machine-learning
Playground for learning about and evaluating machine learning techniques.
samfway/bioparse
Module for parsing the output of various bioinformatics tools.
samfway/biotm
Biom tables meet topic models. Topic models meet biom tables.
samfway/classification
Benchmarking classification techniques
samfway/coassembly
Generate coassembly test cases
samfway/example_project
demo
samfway/faculty_productivity
samfway/make_figures_great_again
MAKE FIGURES GREAT AGAIN
samfway/ml_utils
Utility scripts for interfacing QIIME with scikit-learn.
samfway/pipeline_lite
Generates scripts to run a basic sequencing pipeline.
samfway/python_to_slda
Scripts for interfacing biom tables and metadata files with slda
samfway/qiime-deploy
Tool to easily install QIIME on Linux systems
samfway/qiime-deploy-conf
configuration files to be used with the qiime-deploy packages
samfway/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.
samfway/redblue
Analysis of Halo Reach data
samfway/research_env
Analysis of how academic environment affects individual researcher productivity.
samfway/scholar.py
A parser for Google Scholar, written in Python
samfway/university_network
Code to analyze faculty hiring at North American universities.