R package for integrating and analyzing multiple single-cell datasets

LIANA: a LIgand-receptor ANalysis frAmework

The integration of single cell rank-based gene set enrichment analysis

A collection of 50+ trajectory inference methods within a common interface 📥📤

R package for Pathway RespOnsive GENe activity inference

Analysis of cell-cell communication at single-cell resolution

Methods to compute Local Inverse Simpson's Index (LISI)

Create KEGG.db Package

Methods for decontamination of single cell data

Quantification of isoform usage and alternative polyadenylation (APA) from single-cell RNA-seq using a Nextflow-based pipeline.

Calculate cluster similarity between clusters from different single cell datasets/batches/samples.

Perform differential transcript usage (DTU) analysis of bulk or single-cell RNA-seq data. See documentation at:

An R/Bioconductor package to identify higher-order molecular phenotypes

A computation framework designed to detect differential junctions usage between two groups at single cell level

A tool for quantification of alternative poly A usage

This study constructs two new methods to study alternative splicing events at the single-cell level, namely DESJ-detection and AEN. DESJ-detection can detect alternative splicing differences at the…