Wellcome Trust Sanger Institute - Human Genetics Informatics

yascp

scRNA analysis pipeline

bsub_jupyter_lab

start jupyterlab python and R server on LSF farm5 node via bsub

QTLight

eqtl analysis pipeline using tensorqtl

rstudio_sanger_lsf_farm

bsub Rstudio server on Sanger LSF farm, with access to /lustre, to be accessed via web browser

coloc-flow

hgi-cloud

terraform and ansible codebase to provision clusters (e.g. hail/spark) at Sanger

mercuryrc

go-softpack-builder

Go implementation of a softpack builder service

ibackup

Performant backups of many files to iRODS

softpack-builder

SoftPack Builder provides services for building SoftPack environments

softpack-core

SoftPack Core

softpack-web

Softpack Web provides a graphical user interface for Softpack services.

bin2json

A simple C program to convert binary encode JSON into textual JSON

conda-audited

Wrapper script to and audit and configure miniconda and micromamba

farmers-report

Weekly report for farm usage

go-authserver

A library to easily create an authenticated web server in Go

go-softpack-analytics

MAVEQC

nf_irods_to_lustre

Fetch Cram files and/or Cellranger data from Sanger Irods to /lustre

nf_tower_irods_to_lustre

osdataproc

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.

r-spack-recipe-builder

Spack recipe creator for R packages in CRAN and Bioconductor used to build up the ubeR module for use in farm22

rna_seq

sarek

softpack-docs

SoftPack Documentation

softpack-env-from-module

Create an environment from an SHPC-style module file.

spack-repo

Spack Package Repository

spack-repo-testing

Spack Package Repository (static version for tests)

sync-versions-poetry

Keep pre-commit additional_dependencies in sync with dependencies pinned by Poetry.

wtsi-hgi.github.io

Github webpage for HGI projects