Tools
scEP
treeArches
treeArches is a method to build atlases from annotated single-cell RNA-seq datasets which allows continuous addition of new (un)annotated datasets. treeArches is part of the scArches repository.
tutorial | preprint
TopoGAN
DDA
DDA is an R package to perform Differential Dropout Analysis to identify genes with significantly different number of zeros across biological conditions.
code | wed portal | paper
scHPL
SpaGE
Cytosplore-Transcriptomics
SCHNEL
single-cell classification benchmark workflow
Pancreas Cell Atlas
RShiny app to visualize a comprehensive pancreatic cell atlas created by integrating seven publicly available scRNA-seq pancreatic datasets.
software
Cytosplore Viewer
An interactive visual analysis system for the exploration of single cell data published in the Allen Cell Types Database and for a number of the single cell data resources of the Brain Initiative Single Cell Network (BICCN).
software | paper | video: intro | video: use case
CyTOF linear classifier
CyTOFmerge
BrainScope
An interactive webtool to visualize brain gene expression data from the Allen Human Brain Atlas and the BrainSpan Atlas of the developing human brain.
software | paper | tutorial video