Bioinformatics resources provided by Michael Steinbaugh.
- POSIX shell cheat sheet
- . Reference syntax and commands for POSIX shell scripting.
- Spacemacs cheat sheet
- . Reference commands for the spacemacs text editor.
- Vim cheat sheet
- . Reference commands for the vim text editor.
- Raspberry Pi cheat sheet
- . Additional recommended software configuration for Raspberry Pi.
- Install Raspberry Pi OS
- . Install the official 32-bit Raspberry Pi OS.
- Install Ubuntu on Raspberry Pi
- . Install the 64-bit ARM variant of Ubuntu on a Raspberry Pi.
- Tmux cheat sheet
- . Reference commands for the tmux terminal multiplexer.
- Git cheat sheet
- . Reference commands for the git version-control system.
- Docker cheat sheet
- . Reference commands for Docker.
- AWS ECR cheat sheet
- . Reference commands for creating and pushing repositories on Amazon Web Services (AWS) Elastic Container Repository (ECR) service.
- GnuPG cheat sheet
- . Reference commands for gpg.
- bcbio-nextgen Homo sapiens reference genome
- . Details on the assembly sources used for the hg38 genome build.
- Ubuntu apt repositories
- . Information on the default Ubuntu repositories for apt.
- Docker login using pass credential store
- . More secure method for working with DockerHub on Linux.
- macOS Mojave fix for Rcpp compilation headers
- . C++ headers are currently messed up inside R on Mojave by default.
- Shell strict mode
- . Make the shell stricter by default using set built-in.
- Detect the Illumina sequencer model
- . Extract the Illumina sequencer instrument information from a FASTQ file.
- NCBI genomes
- . Referece information regarding public NCBI genome assemblies.
- Manage Ruby on macOS using rbenv
- . Use a combination of Homebrew and rbenv to manage Ruby on macOS.
- Install Ubuntu
- . Ubuntu Linux is a great programming environment but it’s more difficult to initially set up than macOS or Windows.
- Install macOS
- . How to make that Mac feel new again.
- Visual Studio Code cheat sheet
- . Reference commands for Microsoft’s cross-platform code editor based on Electron.
- Install conda
- . Quick installation guide for conda, along with tips for managing environments.
- Cache R package library on Travis CI
- . How to cache an R/Bioconductor package with multiple dependencies.
- Install bcbio-nextgen
- . bcbio is a python toolkit providing current best practice pipelines for next-generation sequencing data analysis.
- Make a private fork of a public git repository
- . GitHub currently only allows the creation of public forks. However, it is possible to sync code between a public repository and a private mirror.
- 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.