daler Goto Github PK

2015-09-09-nih

aerial.nvim

Neovim plugin for a code outline window

bedtools

A flexible suite of utilities for genome arithmetic. That is, set theory on genomic features.

bedtools2

A powerful toolset for genome arithmetic.

bioconda-recipes

Conda recipes for the bioconda channel.

bioconda-utils

Utilities for building and managing bioconda recipes

biomartpy

Simple interface to BioMart (Python -> rpy2 -> R/BioConductor's biomaRt)

blender-for-3d-printing

Material for introductory course on using Blender for 3D printing

build-test

sandbox for bioconda-utils

chromhmm-enhancers-umel

Identify enhancers. Includes data download, liftover, parallelized workflows, results aggregation, and example output.

chromhmm-tools

Helpers for working with ChromHMM (http://compbio.mit.edu/ChromHMM/)

connect-test

temp repo for testing github status updates

deseq-browser

View DESeq results in a web browser, with filtering and searching

docker-dokuwiki

docker-rw2019

Materials for docker demonstration for Spring 2019 Reproducibility Workshop

dotfiles

dotfiles, batteries included

encode-dataframe

Convert UCSC's ENCODE metadata into pandas DataFrames

enhancer-snakemake-demo

Demos a Snakemake workflow to classify enhancer regions based on publicly available chromatin marks.

entabled

Convert text data files to a browser-viewable version that can be searched, filtered, and sorted

erythroid-genes

Documents the construction of mouse erythroid gene lists

feature-by-reads-matrix

Collection of scripts to create a table of genome features with the number of reads per feature for an arbitrary number of samples

figshare

Command line client for figshare

gdc

Genomic Dataset Constructor: create example BED, GFF, SAM, FASTQ files from "ASCII art" definitions

genomicfeatures

gffutils

GFF and GTF file manipulation and interconversion

gffutils_old

NOTE: see new version at https://github.com/daler/gffutils.

hubward

Manage the visualization of large amounts of other people's [often messy] genomics data

hubward-studies

Config files for running hubward on published data sets.

linregress

Small package for managing linear regression in R from Python via rpy2

marginalhists

Scatterplots with marginal histograms using matplotlib