ebi-gene-expression-group Goto Github PK
Name: EBI Gene Expression Group
Type: Organization
Name: EBI Gene Expression Group
Type: Organization
Scripts to install as a Bioconda package for making workflows
RNA sequencing analysis pipeline using STAR, HISAT2 and Salmon with gene counts and quality control
RNA-seq quantification pipeline used by the eQTL Catalogue
A proof of concept RNA-Seq pipeline with Nextflow
SAMap: Mapping single-cell RNA sequencing datasets from evolutionarily distant organisms.
Simplified SAMap workflow
Specifications of the MAGE-TAB format used for Single Cell Expression Atlas
A place to store and version specifications for file formats associated with downstream single-cell analysis
Single-Cell Analysis in Python. Scales to >1M cells.
Scripts for using scanpy
Workflow leveraging the scanpy-scripts package to run Scanpy in a Nextflow workflow
CLI scripts for the scmap Bioconductor package
Nextflow pipeline for the scmap tool
Workflow for generating pre-trained scmap classifiers
Command-line interface for the scPred cell classifaction package
Nextflow pipeline for scpred package
Workflow for generating pre-trained Scpred classifiers
Command line interface for scran package. Low-level analyses of single-cell RNA-seq data.
Materials for training provision on single-cell RNA-seq
Aggregation component for SCXA workflows
Workflow for making bundles for Single-cell Expression Atlas
Master workflow for running each component of the SMART-seq and droplet SCXA pipelines
Quantification component for droplet-based studies
t-SNE plot view tab for Single Cell Expression Atlas experiment page
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