gene-expression topic

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

seandavi

NicheNet: predict active ligand-target links between interacting cells

saeyslab

Building classifiers using cancer transcriptomes across 33 different cancer-types

greenelab

🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment

COMBINE-lab

Spatial alignment of single cell transcriptomic data.

broadinstitute

Python3 binding to mRMR Feature Selection algorithm (currently not maintained)

fbrundu

Training and evaluating a variational autoencoder for pan-cancer gene expression data

greenelab

R/shiny interface for interactive visualization of data in SummarizedExperiment objects

iSEE

Implementation of Enformer, Deepmind's attention network for predicting gene expression, in Pytorch

lucidrains

Deep learning for gene expression inference

uci-cbcl