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ciara

CIARA (Cluster Independent Algorithm for the identification of markers of RAre cell types) is an R package that identifies potential markers of rare cell types looking at genes whose expression is confined in small regions of the expression space

complexheatmap

Make Complex Heatmaps

cross-modal-autoencoders

datasharing

The Leek group guide to data sharing

dialogue

DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map the cell transcriptome as a function of its environment.

msu_ngs2015

DE analysis module for Week3

nanopore_methylation

novosparc

planets

scanpy

Single-cell analysis in Python. Scales to >1M cells.

scave

scib

Benchmarking analysis of data integration tools

sclvm

scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources, thereby allowing for the correction of confounding sources of variation.

scslam-seq

spatial_scog_workshop_2022

Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022

spectra

Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms

tomo-seq