Steve Pettitt's repositories
openfoodnetwork
Connect suppliers, distributors and consumers for the sale and purchase of local produce
lsf
Simple job submission to LSF for Ruby
bioruby-sam-mutation
Parsing and mutation calling from SAM, CIGAR and MD:Z.
tfl-journey
TFL journey time optimiser
transposon-sanger
Mapping PB integrations from Sanger (e.g.) sequencing data
slack-pubmed
Utility to spam a slack channel with pubmed search results
ofn-install
Ansible scripts for provisioning and deploying Open Food Network
bioruby-plates
Library for working with 96-well plate annotations, including rearranging to 384-well+
ruby-ensembl-api
A ruby API to the Ensembl database
vim-examples
Examples and installation instructions for vim intro at Ruby Hacknight
bioruby-samtools
Porting of samtools-ruby to BioRuby. Binder of samtools for ruby, on the top of FFI -from original project-
kinase-dependency-profiling
R scripts used to analyse data for "Large-Scale Profiling of Kinase Dependencies in Cancer Cell Lines" (http://dx.doi.org/10.1016/j.celrep.2016.02.023)
celigo-ruby
Ruby methods for parsing Celigo output files
crisprion
Ruby classes for parsing SAM files and the MD:Z tag generated by BWA. Geared towards annotating CRISPR-induced mutations (relative to a given expected cleavage position) from Ion Torrent sequencing data.
screens
R code for analysing drug screens (multi wells and pools)
pb-pool
Pooled barcoded transposon screen analysis
uhom
Microhomology simulation script