Pipeline for testing drug response prediction models in a statistically and biologically sound way.

Boostdiff workflow

Rapids_singlecell: A GPU-accelerated tool for scRNA analysis. Offers seamless scverse compatibility for efficient single-cell data processing and analysis.

Declarative visualization library for Python

Declarative creation of composable visualization for Python (Complex heatmap, Upset plot, Oncoprint and more~)

ATAC-seq peak-calling and QC analysis pipeline

ChIP-seq peak-calling, QC and differential analysis pipeline.

Nascent Transcription Processing Pipeline

Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection

CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.

A single cell transcriptomics pipeline for QC, integration and making the data presentable

Bioinformatics pipeline that makes use of expression and open chromatin data to identify differentially active transcription factors across conditions.

circRNA quantification, differential expression analysis and miRNA target prediction of RNA-Seq data

TF analysis from epigenetic and Hi-C data

Nextflow runs monitoring and organisation UI

A nextflow pipeline for processing sc-RNASeq data, performing QC and integration and preparing the results for further investigation using cellxgene.

WebAssembly modules for genomics

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

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

Java interface for Slurm Native C-API