Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project

Snakemake workflow for the preprocessing, alignment, QC, and quantification of spatial transcriptomics data

Tools for detecting alternative splicing events and genotype in single-cell gene expression data.

Convert Seurat objects to 10x Genomics Loupe files.

LongcallR is a small variant caller for single molecule long-read RNA-seq data

Reference transcriptome indices build from kallisto for popular organisms

Find causal cell-types underlying complex trait genetics

R package for analysing single cell data

Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders

Tool for the Quality Control of Long-Read Defined Transcriptomes

DeepKINET tutolial

Code and example of the D-SPIN framework

Multiview Intercellular SpaTial modeling framework

R package to infer biological activities from omics data using a collection of methods.

Plotting functions for SingleCellExperiment objects

Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)

An experimental language for causal reasoning

Code used to compare sequencing techs

cDNA read preprocessing

Full-Length Alternative Isoform analysis of RNA

REVIGO (REduce VIsualize Gene Ontology) Core library

Learning Single-Cell Perturbation Responses using Neural Optimal Transport

Ultra-efficient taxonomic mapping of NGS data

renv: Project environments for R.

machine-readable file format for genomic library sequence and structure

Genome browser and variant annotation

Supervised Pathway DEConvolution of InTerpretable Gene ProgRAms

Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.

R package to access DoRothEA's regulons