Pinned Repositories
annotations_update
Artemis
Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation
assembly_improvement
Bio-AutomatedAnnotation
Perl module to take in an genomic assembly and produce annoation
Bio-ENA-DataSubmission
Bio-GFFValidator
Bio-HPS-FastTrack
Bio-InterProScanWrapper
Bio-Metadata-Validator
Validate a genome metadata manifest against a checklist
bio_assembly_refinement
Tools to refine/finish an assembly
nds's Repositories
nds/Bio-ENA-DataSubmission
nds/Bio-HPS-FastTrack
nds/Bio-Metadata-Validator
Validate a genome metadata manifest against a checklist
nds/Bio-Metagenomics
nds/Bio-Pequeno
nds/Bio-Resistome
nds/Bio-RetrieveAssemblies
nds/Bio-RNASeq
The new Sanger Pathogen Informatics RNA Seq analysis pipeline
nds/Bio-Sequencescape-Schema
DBIC schema for the sequencescape warehouse database
nds/Bio-TypingGenerator
nds/Bio-VertRes-Permissions
nds/eg-web-common
modules/files required to set up any of the EG genome browsers
nds/eg-web-fungi
modules required to set up EG Fungi mirror
nds/ensembl-analysis
Modules to interface with tools used in Ensembl Gene Annotation Process and scripts to run pipelines
nds/ensembl-compara
The Ensembl Compara Perl API and SQL schema
nds/ensembl-genomio
Pipelines to turn basic genomic data into Ensembl cores and back
nds/ensembl-metadata
API for storing and querying metadata from Ensembl and EnsemblGenomes
nds/ensembl-production
Ensembl Production code
nds/ensembl-production-imported
Production pipelines used by data-teams to process imported genomes (former EnsemblGenomes pipelines)
nds/ensembl-static-2024
Stores all static contents for Non-vertebrates divisions and species.
nds/mettannotator
METT annotation
nds/mlst_check
nds/PathFind
Modularised versions of *find scripts
nds/pipelines_reporting
nds/public-plugins
Plugins for an Ensembl website
nds/Roary
Rapid large-scale prokaryote pan genome analysis
nds/sarscov2-annotation
Selection of code used to import SARS-CoV-2 related annotation into a BigBed file for loading into various genome browsers. This is based on efforts by the UCSC Genome Browser team
nds/setup_tracking
setup a vrtracking pipeline
nds/update_pipeline
nds/vrtrack_crawl