Name: Josh Herr
Type: User
Company: University of Nebraska
Bio: 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.
Location: Lincoln, NE, USA
Blog: http://joshuaherr.com
Josh Herr's Projects
Bootcamp at Indiana University Jan 2014
Bootcamp at Purdue University in March 2014
Software Carpentry Bootcamp at George Washington University on April 29th-30th 2014
Software Carpentry Bootcamp on June 26th-27th, 2014, at Notre Dame University
Software Carpentry Bootcamp on July 10th-11th, 2014, at ESIP meeting in Frisco, CO, USA
Data Carpentry workshop July 24-25 BEACON
Software Carpentry Bootcamp on September 11th-12th, 2014, at the University of Delaware
Software Carpentry Bootcamp held at Michigan State University on January 27th to 29th, 2015
Repo for Software Carpentry at Creighton University, August 3rd & 4th, 2016
A simple tool to visualize sequences using Vlachos et al's technique
American Gut open-access data and IPython notebooks
R package arcdiagram
Convenience function for quick and dirty data analysis
Template for Software Carpentry bootcamp site repository.
A powerful toolset for genome arithmetic.
assemblies, annotations, further analysis on sequenced strains from the EHEC outbreak
BinGeR: in-situ Genome recovery tool for series metagenomes
Research code for various bioinformatics projects
Tools for bioinformatics
Just a bunch of scripts I use for bioinformatics -- feel free to use, reuse, and improve
Blacktie: a streamlined interface to the popular tophat/cufflinks RNA-seq pipeline
Boring website.
Hands-free microbial genome assembly
This is the chicken paper repositiory
This is Josh's working folder for daily progress reports
R scripts and tutorial datasets to detect conditionally rare taxa in time series of microbial communities