Wellcome Trust Sanger Institute - Human Genetics Informatics's Projects
Single Cell Nextflow cell cell interaction pipeline.
Single cell Nextflow cellbender pipeline.
Fetch Cram files and/or Cellranger data from Sanger Irods to /lustre
nextflow pipeline for long read processing
CellSNP-Vireo deconvolution pipeline, with optional genotype input.
Single cell RNA-seq quality control, transcription profile clustering & cell-type assignment
single-cell eQTL mapping using tensorQTL (linear models)
LDAP Auth for swarm
Raw HTTP response writer with basic templating
Supervisor manager in node.js
Containerisation-agnostic LSF execution configuration for Cromwell
Provide an authenticated http proxy that provides connectivity via an OpenConnect VPN client (to connect to a compatible AnyConnect VPN server)
Gets information about what is in an OpenStack tenant
Cleans up old images, instances and keys in OpenStack tenants based on a configuration
Tools for working with OpenStack
A web application to generate usage report for hail clusters
osdataproc is a command-line tool for creating an OpenStack cluster with Apache Spark and Apache Hadoop configured. It comes with JupyterLab and Hail, a genomic data analysis library built on Spark installed, as well as Netdata for monitoring.
Packer is a tool for creating identical machine images for multiple platforms from a single source configuration.
Parallel copy tool
PetardFS - a FUSE filessytem for injecting intentional errors (e.g. for testing)
A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.
Go bindings for pigpio C library for Raspberry Pi GPIO
Platypus Variant Caller