Name: Shaun Jackman
Type: User
Company: @10xGenomics
Bio: 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.
Twitter: sjackman
Location: Vancouver, Canada
Blog: https://sjackman.ca
Shaun Jackman's Projects
Efficient Assembly of Large Genomes
Supporting documents for talk and workshop for SFU Statistics and Actuarial Science
Conference abstracts
:microscope: Assemble large genomes using short reads
ABySS learning activity
Effect of Bloom filter false positive rate on assembly with ABySS
:microscope: Assemble Drosophila melanogaster with ABySS
Scaling ABySS to longer reads using spaced k-mers and Bloom filters
Scaffolding a genome sequence assembly using ABySS
ABySS 2.0: Resource-efficient assembly of large genomes using a Bloom filter
Materials for Analyzing Next-Generation Sequencing (ANGUS) course.
Scaffold genome sequence assemblies using 10x Genomics data
Components of genome sequence assembly tools
Compare assembly graph file formats
Genome sequence assembly slides
List of tools and resources related to the 10x Genomics GEMCode/Chromium system
A curated list of awesome pipeline toolkits inspired by Awesome Sysadmin
count DNA sequence reads in BAM files
C++ API & command-line toolkit for working with BAM data
Bacterial ribosomal RNA predictor
Template for Software Carpentry bootcamp site repository.
de Bruijn graph compaction in low memory
Build a beautiful and simple website in literally minutes. Demo at http://deanattali.com/beautiful-jekyll
A powerful toolset for genome arithmetic.
BEETL
High-performance error correction for Illumina resequencing data
BWK awk modified for biological data
Conda recipes for the bioconda channel.
GNU-Make-like utility for managing builds and complex workflows