sjackman
I am a computational biologist (PhD), a developer of Cell Ranger and Homebrew, an open-source programmer, an avid traveller, a singer, and an enthusiastic cook.
@10xGenomicsVancouver, Canada
Pinned Repositories
abyss
:microscope: Assemble large genomes using short reads
tigmint
⛓ Correct misassemblies using linked AND long reads
homebrew-bio
:beer::microscope: Bioinformatics formulae for the Homebrew package manager (macOS and Linux)
GFA-spec
Graphical Fragment Assembly (GFA) Format Specification
brew
🍺 The missing package manager for macOS (or Linux)
docker-bio
Docker images of bioinformatics software
dotfiles
~/.*
fastascripts
Manipulate FASTA files
lambdar
ƛR: Run R on AWS Lambda
uniqtag
Abbreviate strings to short, unique identifiers
sjackman's Repositories
sjackman/lambdar
ƛR: Run R on AWS Lambda
sjackman/gfalint
Check a GFA file for syntax errors
sjackman/abyss-activity
ABySS learning activity
sjackman/linkage-map-slides
Scaffolding genome sequence assemblies using a linkage map
sjackman/marmot-mitochondrion
Yellow-bellied marmot
sjackman/picea-sitchensis-mitochondrion-legacy
:evergreen_tree: Mitochondrial genome of Sitka spruce (Picea sitchensis)
sjackman/pygraphviz
Python interface to Graphviz graph drawing package
sjackman/readr
Read flat files (csv, tsv, fwf) into R
sjackman/spades
SPAdes Genome Assembler
sjackman/tigmint-data
Tigmint: Correcting Assembly Errors Using Linked Reads From Large Molecules
sjackman/assembler-components
Components of genome sequence assembly tools
sjackman/bioconda-recipes
Conda recipes for the bioconda channel.
sjackman/docker-imgs
A repository to store all the docker images used in flowcraft
sjackman/flowcraft
A Nextflow pipeline assembler for genomics :whale::package:
sjackman/GFA-spec
Graphical Fragment Assembly (GFA) Format Specification
sjackman/gfa1
Library and command-line tool to manipulate assembly graph in the GFA format
sjackman/gfakluge
A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
sjackman/homebrew-num
:beer::1234: Homebrew formulae for numerical methods
sjackman/homebrew-tap
Personal formulae for the Homebrew package manager
sjackman/homebrew-xorg
:heavy_multiplication_x: X.Org implementation of the X Window System
sjackman/lariat
Linked-Read Alignment Tool
sjackman/modular-assembly-hs18
Mix and match modular genome assembler components
sjackman/nycflights13
An R data package containing all out-bound flights from NYC in 2013 + useful metdata
sjackman/orca
:whale: Genomics Research Container Architecture
sjackman/patchelf.rb
ELF patcher
sjackman/psitchensismt-slides
Mitochondrial Genome of Sitka Spruce (Picea sitchensis)
sjackman/quick-cliques
Quickly compute all maximal cliques of a graph
sjackman/tigmint-paper
Tigmint: Correcting Assembly Errors Using Linked Reads From Large Molecules
sjackman/tigmint-recomb-slides
Tigmint: Correcting Misassemblies Using Linked Reads From Large Molecules
sjackman/Unicycler
hybrid assembly pipeline for bacterial genomes