Pinned Repositories
anatomogram
Anatomogram illustrating Expression Atlas experiments
atlas
Expression Atlas
atlas-heatmap
Heatmap visualizing bulk Expression Atlas data
container-galaxy-sc-tertiary
Galaxy container for single cell RNA-Seq tertiary analysis tools
monocle-scripts
Command line scripts wrapping functions in monocle3
r-seurat-scripts
Scripts to install as a Bioconda package for making workflows
react-ebi-species
scanpy-scripts
Scripts for using scanpy
scanpy-workflow
Workflow leveraging the scanpy-scripts package to run Scanpy in a Nextflow workflow
scxa-workflows
Higher level repo for aggregating all of Atlas workflow logic for Single Cell
EBI Gene Expression Group's Repositories
ebi-gene-expression-group/anatomogram
Anatomogram illustrating Expression Atlas experiments
ebi-gene-expression-group/react-ebi-species
ebi-gene-expression-group/scrnaseq_training
Materials for training provision on single-cell RNA-seq
ebi-gene-expression-group/scxa-tsne-widget
t-SNE plot widget to visualise Single Cell Expression Atlas data
ebi-gene-expression-group/dropletutils-scripts
DropletUtils scripts to install as a Bioconda package for making workflows
ebi-gene-expression-group/atlas-package
Template for NPM packages with React
ebi-gene-expression-group/hca-matrix-downloader
Python client for the DCP matrix service (prototype)
ebi-gene-expression-group/samap-workflow
Simplified SAMap workflow
ebi-gene-expression-group/atlas-bioentity-information
Gene bioentity information
ebi-gene-expression-group/atlas-homepage-cards
A React component that renders grids of cards containing images and links
ebi-gene-expression-group/atlas-annotations-ensembl
Ensembl annotations for Atlas
ebi-gene-expression-group/atlas-experiment-table
ebi-gene-expression-group/atlas-number-format
A simple helper React component to display numbers in scientific notation.
ebi-gene-expression-group/atlas-react-fetch-loader
A HOC React component that enables other components to remotely fetch data from an endpoint
ebi-gene-expression-group/atlas-smileys-feedback-form
ebi-gene-expression-group/eslint-config-gene-expression
An npm module containing ESLint settings for the Gene Expression group.
ebi-gene-expression-group/galaxy-kubernetes
Minimal setup required to run Galaxy under Kubernetes
ebi-gene-expression-group/garnett-train-workflow
Workflow for generating pre-trained Garnett classifiers
ebi-gene-expression-group/highcharts-series-generator
Small utility package to generate random data for Highcharts plots
ebi-gene-expression-group/rnaseq
RNA sequencing analysis pipeline using STAR, HISAT2 and Salmon with gene counts and quality control
ebi-gene-expression-group/rnaseq-eqtl
RNA-seq quantification pipeline used by the eQTL Catalogue
ebi-gene-expression-group/SAMap
SAMap: Mapping single-cell RNA sequencing datasets from evolutionarily distant organisms.
ebi-gene-expression-group/sc-metadata-fields
Specifications of the MAGE-TAB format used for Single Cell Expression Atlas
ebi-gene-expression-group/scmap-train-workflow
Workflow for generating pre-trained scmap classifiers
ebi-gene-expression-group/scpred-train-workflow
Workflow for generating pre-trained Scpred classifiers
ebi-gene-expression-group/scxa-experiment-page-tsne-plot-view
t-SNE plot view tab for Single Cell Expression Atlas experiment page
ebi-gene-expression-group/scxa-gene-search-form
ebi-gene-expression-group/scxa-marker-gene-heatmap
Highcharts heatmap used to visualise marker genes for Single Cell Expression Atlas
ebi-gene-expression-group/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
ebi-gene-expression-group/tools-iuc
Tool Shed repositories maintained by the Intergalactic Utilities Commission