Toolbox of the Human Neural Organoid Cell Atlas

Calculate multiplet frequency in single-cell RNA sequencing when cells are mixed in arbitrary proportions

Feature selection by EM test

Collections of library structure and sequence of popular single cell genomic methods

Computational pipeline to process EasySci-RNA data.

scBiG for representation learning of single-cell gene expression data based on bipartite graph embedding

GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations

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Useful bash one-liners for bioinformatics.

Bioinformatics pipeline to identify differentially active transcription factors between conditions using expression and epigenetic data

scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference

Multiome GRN inference.

SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) and single-cell chromatin accessibility (scATAC-seq) data.

This is the alpha version of the CellOracle package

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Bulk RNA-seq analysis.