Toolbox of the Human Neural Organoid Cell Atlas

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

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.