steinbaugh.com

Bioinformatics resources provided by Michael Steinbaugh.

Software

basejump
Base functions for bioinformatics and R package development.
seqcloud
High-performance computing scripts for bioinformatics.

Harvard Chan Bioinformatics Core

bcbio
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis.
bcbioRNASeq
Quality control and differential expression for bcbio RNA-seq experiments.
bcbioSingleCell
Import and analyze bcbio single-cell RNA-seq data.

C. elegans genetics

worminfo
C. elegans gene annotations and RNAi clone mappings.
rnaiscreen
Automated scoring for a C. elegans genome-wide RNAi screen.

Articles

Interactive R on an HPC cluster

How to run R in an interactive session.

Clean install macOS

How to make that Mac feel new again.

Install RDAVIDWebService

An R Package for retrieving data from DAVID into R objects using Web Services API.

Automounts on macOS with NFS

The best method to automatically connect your Mac to network storage.

Programming style rules

Clean code, happy life.

C. elegans resources

Links to worm tools around the web.

Clean install Ubuntu

Ubuntu Linux is a great programming environment but it’s more difficult to initially set up than macOS or Windows.

Clean install a Raspberry Pi device

How to get a Pi up and running in less than 15 minutes.