khughitt

network-biology-study-group

Notes and code from a network biology study group at UMD.

2016-iscb-dc-rsg-workshop-presentation

ISCB DC RSG 2016 Workshop Presentation: Co-expression network analysis using RNA-Seq data

awesome-R

A curated list of awesome R packages, frameworks and software.

crosstalk-demo

knitrBootstrap

A framework to create bootstrap styled HTML reports from knitr Rmarkdown.

ribosome_profiling

slidify-annotation_enrichment_analysis

Journal club: Annotation Enrichment Analysis: An Alternative Method for Evaluating the Functional Properties of Gene Sets

slidify-wgcna

Journal club presentation on Weighted Correlation Network Analysis (WGCNA)

urban-data-dive

Urban Data Dive: How Better Data Can Reduce Domestic Violence

brookings-ending-rural-hunger-hackathon-2015

Brookings Institute - Ending Rural Hunger Hackathon (2015)

ete

ETE is a python programming toolkit that assists in the automated manipulation, analysis and visualization of any type of hierarchical trees. This includes phylogenetic trees, clustering results and profile-based trees. It supports node annotation, programatic tree drawing, circular visualization, SVG, PNG and PDF image rendering, and more!

eve

Ensemble Variant Detection (EVE)

EXTREME

An online EM implementation of the MEME model for fast motif discovery in large ChIP-Seq and DNase-Seq Footprinting data

helpmeviz-womens-empowerment

HelpMeViz Hackathon - 2014/06/28

hidden-hunger-hackathon-2015

2015 HelpMeViz Vizathon: Hidden Hunger

irefindex-ensembl-network

Simple script to parse iRefIndex PSI MITAB files and generate an ENSEMBL gene edge list

knitcitations

Generate citations for knitr markdown and html files

nerdcommenter

Vim plugin for intensely orgasmic commenting

pacman

A package management tools for R

pkgbuild

ruffus

Ruffus is a lightweight python module for running computational pipelines.

shiny-htmlwidget-example

Example of hosting a Shiny-like interactive plot on Github pages.

slidify-co-expr_co-reg_relationship

Journal club: Quantifying the relationship between co-expression, co-regulation and gene function (Allocco et al. 2004)

smooth.ratio

sva-devel

todotxt-machine

an interactive terminal based todo.txt file editor with an interface similar to mutt

tritrypdb

A small collection of R functions for working with TriTrypDB data files.

urban-data-camp_youth-jobs

#UrbanDataCamp: Using Data to Help Low-Income Youth Find Jobs

Vim-R-plugin

Plugin to work with R (forked for development only)

vim-textobj-underscore

Underscore text-object for Vim