Pinned Repositories
361Division
361 Division - Scientific Training, Education and Learning
Aequatus
Earlham Institute's Synteny Browser
earlham-galaxytools
Galaxy tools and workflows developed at the Earlham Institute
KAT
The K-mer Analysis Toolkit (KAT) contains a number of tools that analyse and compare K-mer spectra.
kontaminant
Tool to look for contaminants, with a kmer database.
lncRNA-analysis
NanoOK
Analysis tool for Nanopore sequencing data
RAMPART
A configurable de novo assembly pipeline
statsdb
StatsDB
TGACBrowser
TGAC's Genome Browser
Earlham Institute's Repositories
TGAC/TGACBrowser
TGAC's Genome Browser
TGAC/Aequatus
Earlham Institute's Synteny Browser
TGAC/COPO-documentation
COPO documentation was created using the Sphinx reStructuredText (reST) markup language which is hosted on readthedocs.io. The documentation uses Sphinx.
TGAC/grassroots-client-frictionless-data
A tool to extract the resources from a Grassroots Frictionless Data Package
TGAC/grassroots-service-blast
The BLAST services for the Grassroots infrastructure
TGAC/grassroots-service-field-trial
A Grassroots service for storing the data for field trials
TGAC/grassroots-service-polymarker
The Polymarker service for the Grassroots infrastructure.
TGAC/COPO-production
COPO is a Django-based platform that serves as a metadata broker to describe research data per FAIR principles. It supports community-recognised metadata standards, ensuring data is discoverable, interoperable, and accessible. Submitted data is accessible via public repositories, promoting long-term preservation and reuse across systems.
TGAC/EDP
mainline production repository for EDP
TGAC/eisca
A single-cell RNA-seq pipeline aimed at covering all analysis stages from quantification and clustering to tertiary analyses.
TGAC/grassroots-core
The core libraries of the Grassroots infratructure
TGAC/knowledge_base
EI specific documentation (induction materials, tool/method specific advice); contributions made by EI users.
TGAC/Basecall2Assembly
Snakemake pipeline that takes raw ONT and generates an assembly
TGAC/FlowFI
FlowFI is a python-based package for selecting important features for gating of flow cytometry events and analysis of these features.
TGAC/grassroots-accessions-service
A Grassroots service for managing and querying various different plant accessions
TGAC/grassroots-build-tools
Scripts to manage the building of the different Grassroots infrastructure components
TGAC/grassroots-client-java
TGAC/grassroots-docs
Documentation about the Grassroots Infrastructure
TGAC/grassroots-server-apache-httpd
The Apache httpd server module for the Grassroots infrastructure
TGAC/grassroots-service-marti
A service to integrate Grassroots Field Trials and MARTI data
TGAC/grassroots-tutorials
A set of tutorials on using the various parts of Grassroots
TGAC/grassroots-user-docs
TGAC/grassroots-web-portal-static-onepage
TGAC/grassroots_services_django_web
TGAC/opendata-projects
A tool to set the iRODS metadata from a projects store
TGAC/QCPipeline
QC pipeline for genome assemblies
TGAC/reposyncer
GitHub workflow to sync various repo mirrors
TGAC/rfparser
Parse ResearchFish publications to update CKAN
TGAC/simple_templates
A module to get the correct data for a project on the opendata portal
TGAC/SingleCellSchemas
For resources relating to EI Cellgen ISP