jrherr
I am an Assistant Professor at the University of Nebraska. I study the genomics and metagenomics of plant-microbe interactions with a focus on mycology.
University of NebraskaLincoln, NE, USA
Pinned Repositories
2014-04-29-gwu
Software Carpentry Bootcamp at George Washington University on April 29th-30th 2014
2015-01-27-msu_icer
Software Carpentry Bootcamp held at Michigan State University on January 27th to 29th, 2015
alignerviz
A simple tool to visualize sequences using Vlachos et al's technique
bioinformatics_scripts
Just a bunch of scripts I use for bioinformatics -- feel free to use, reuse, and improve
fasta_utilities
A collection of scripts developed to interact with fasta, fastq and sam/bam files.
ggplot2-tutorial
Teaching materials for the R package ggplot2
jrherr.github.com
Open Notebook
oneliners
Useful bash one-liners for bioinformatics.
quick_basic_R_tutorial
This is a quick and basic tutorial for R
jrherr's Repositories
jrherr/fasta_utilities
A collection of scripts developed to interact with fasta, fastq and sam/bam files.
jrherr/jrherr.github.com
Open Notebook
jrherr/Python_for_Data_Science
A rapid on-ramp primer for programmers who want to learn Python for doing data science research and development.
jrherr/2014-03-17-purdue
Bootcamp at Purdue University in March 2014
jrherr/bc
Template for Software Carpentry bootcamp site repository.
jrherr/bedtools2
A powerful toolset for genome arithmetic.
jrherr/BinGeR
BinGeR: in-situ Genome recovery tool for series metagenomes
jrherr/bioinformatics
Tools for bioinformatics
jrherr/cosmid
Genomics database manager
jrherr/d3
A JavaScript visualization library for HTML and SVG.
jrherr/homebrew-cask
a friendly homebrew-style CLI workflow for the administration of Mac applications distributed as binaries
jrherr/homebrew-science
Scientific formulae for the Homebrew package manager
jrherr/httr
httr: a friendly http package for R
jrherr/jbrowse
A modern genome browser built with JavaScript and HTML5.
jrherr/jekyll-bootstrap
The quickest way to start and publish your Jekyll powered blog. 100% compatible with GitHub pages.
jrherr/jmpress.js
A jQuery plugin to build a website on the infinite canvas
jrherr/khmer_diversity
Tools to evaluate the diversity of metagenomics sample
jrherr/metAMOS
A metagenomic and isolate genome assembly pipeline built with AMOS
jrherr/poppin
A tool for bacterial gene assembly.
jrherr/psmc
jrherr/Punchcard
Generate GitHub-style punchcard charts with ease.
jrherr/pysam
Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.
jrherr/Rphylip
An R interface for PHYLIP.
jrherr/rst2html5
transform restructuredtext documents to html5 + twitter's bootstrap css, deck.js or reveal.js
jrherr/samtools
This is the official development repository for samtools.
jrherr/SeqPrep
Tool for stripping adaptors and/or merging paired reads with overlap into single reads.
jrherr/Sibelia
Genome comparison via de Bruijn graph. To get the latest stable version, please visit our site.
jrherr/startbootstrap
Better HTML Starter Templates for Bootstrap 3
jrherr/taxize
Search web taxonomy sites and download data
jrherr/vectoreditor
Web based DNA sequence editing and analysis tool