Pinned Repositories
arrayexpress-cram-submission
A python pipeline for submitting CRAM files generated by ArrayExpress to the European Nucleotide Archive (ENA)
eg-rest
Ensembl Genomes REST interface plugins
eg-web-common
modules/files required to set up any of the EG genome browsers
eg-web-fungi
modules required to set up EG Fungi mirror
eg-web-plants
modules required to set up EG Plants mirror
eg-web-protists
modules required to set up EG Protists mirror
ensemblgenomes-api
Auxillary API for accessing Ensembl Genomes databases using the Ensembl Perl API
mysqlnaga
MySQL comes with a huge number of very useful scripts however there are situations where the toolset is no adequate. This package attempts to fill that gap. The project is called naga because it is meant to be red hot (like the chili). It probably will not be.
parasite-rest
Endpoints and documentation specific to the WormBase ParaSite REST service
Red
Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale.
Ensembl Genomes's Repositories
EnsemblGenomes/eg-rest
Ensembl Genomes REST interface plugins
EnsemblGenomes/ensemblgenomes-api
Auxillary API for accessing Ensembl Genomes databases using the Ensembl Perl API
EnsemblGenomes/eg-web-common
modules/files required to set up any of the EG genome browsers
EnsemblGenomes/arrayexpress-cram-submission
A python pipeline for submitting CRAM files generated by ArrayExpress to the European Nucleotide Archive (ENA)
EnsemblGenomes/eg-web-plants
modules required to set up EG Plants mirror
EnsemblGenomes/eg-web-fungi
modules required to set up EG Fungi mirror
EnsemblGenomes/eg-web-parasite
Modules required to set up a WormBase ParaSite genome browser
EnsemblGenomes/eg-web-protists
modules required to set up EG Protists mirror
EnsemblGenomes/parasite-rest
Endpoints and documentation specific to the WormBase ParaSite REST service
EnsemblGenomes/Red
Red: an intelligent, rapid, accurate tool for detecting repeats de-novo on the genomic scale.
EnsemblGenomes/eg-biomart-perl
Ensembl Genomes specific fork of BioMart martview. Contains modifications to support Ensembl Genomes databases.
EnsemblGenomes/eg-web-bacteria
modules required to set up EG Bacteria mirror
EnsemblGenomes/eg-web-metazoa
modules required to set up EG Metazoa mirror
EnsemblGenomes/eg-web-search
Modules required for an EG mirror to use eb-eye search service
EnsemblGenomes/eg-web-testsuite
Test suite for Ensembl Genomes websites
EnsemblGenomes/parasite-docs
Repository to store static documentation content for WormBase ParaSite (separate to main eg-web-parasite repo)
EnsemblGenomes/parasite-static
Keeping static contents for ParaSite website
EnsemblGenomes/personal-dbolser
Scripts and other junk from dbolser
EnsemblGenomes/wbps-biomart-perl
MartView with specific customisations for WormBase ParaSite
EnsemblGenomes/ebi_plant_index
Parse EBI plant samples and represent them in json for federated search
EnsemblGenomes/eg-web-g1k
Repository for files required to set up 1000genomes mirror of Ensembl
EnsemblGenomes/eg-web-vectorbase
modules required to set up a VectorBase genome browser
EnsemblGenomes/ensembl-analysis
Modules to interface with tools used in Ensembl Gene Annotation Process and scripts to run pipelines
EnsemblGenomes/ensembl-static
Stores all static contents for Non-vertebrates divisions and species.
EnsemblGenomes/Liftoff
An accurate GFF3/GTF lift over pipeline
EnsemblGenomes/molecular_interactions_resource
EnsemblGenomes/phytopathdb-static
Static HTML version of phytopathdb.org
EnsemblGenomes/RNAseqTHS
RNASeq Trackhub Pipeline
EnsemblGenomes/transplantdb-static
Static HTML version of transplantdb.eu
EnsemblGenomes/vectorbase-rest
VectorBase REST interface plugins