Benchmarking pipeline published in https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1571-5
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Updated
Sep 14, 2018 - R
Benchmarking pipeline published in https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1571-5
Index and search single cell data.
Download fastqs or supplementary files from GEO and upload to hca-util bucket
HumanCellAtlas upload-service validator for SpaceTx files
CURRENTLY IN DEVELOPMENT. A package to provide user-friendly access to Human Cell Atlas resources. This package is meant to have similar functionality to the HCA data-explorer https://data.humancellatlas.org/explore/projects.
This is the pipeline to perform a Drop-seq simulation based benchmark - see https://www.biorxiv.org/content/early/2018/01/17/248716
An R package that visualizes Human Cell Atlas annotations on an SVG cell image.
Benchmarking pipeline published in https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1571-5
Binary Factor Analysis: a dimensionality reduction tool for noisy, high throughput single cell genomic data
Convert supported filesets to the SpaceTx format
Clone of the Bioconductor repository for the beachmat package.
CITE-seq profiling of human PBMCs at baseline and activation conditions
Examples of custom panels for the iSEE package
Clone of the Bioconductor repository for the BiocNeighbors package.
Ontology visualizer
This repository contains our CellTag CloneHunter R package for clone-calling.
Clone of the Bioconductor repository for the BiocSingular package.
Add a description, image, and links to the human-cell-atlas topic page so that developers can more easily learn about it.
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