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We write your reusable computer vision tools. 💜
A GPU-accelerated web application for visualization, annotation and sharing of spatial biology data
C++ whole slide image reader with native python bindings
A toolbox for registering / fusing / stitching large multi-view / multi-positioning image datasets in 2-3D.
Ultimate ATAC-seq Data Processing, Quantification and Annotation Snakemake Workflow and MrBiomics Module.
Workflow to Fetch Public Sequencing Data and Metadata Using iSeq and MrBiomics Module.
RNA-seq Data Processing, Quantification and Annotation Snakemake Workflow and MrBiomics Module.
A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices resulting from next-generation sequencing (NGS) experiments (e…
A Snakemake workflow and MrBiomics module for performing and visualizing differential analyses of NGS data powered by the R package limma.
A Snakemake workflow and MrBiomics module for performing genomic region set and gene set enrichment analyses using LOLA, GREAT, GSEApy, pycisTarget and RcisTarget.
A Snakemake workflow and MrBiomics module for easy visualization of genome browser tracks of aligned BAM files (e.g., RNA-seq, ATAC-seq, scRNA-seq, ...) powered by the wrapper gtracks for the packa…
A Snakemake workflow and MrBiomics module for processing and visualizing (multimodal) sc/snRNA-seq data generated with 10X Genomics Kits or in the MTX matrix file format powered by the R package Se…
A general purpose Snakemake workflow and MrBiomics module to perform unsupervised analyses (dimensionality reduction & cluster analysis) and visualizations of high-dimensional data.
A Snakemake workflow and MrBiomics module for performing perturbation analyses of pooled (multimodal) CRISPR screens with sc/snRNA-seq read-out (scCRISPR-seq) powered by the R package Seurat's meth…
A Snakemake workflow and MrBiomics module for performing differential expression analyses (DEA) on (multimodal) sc/snRNA-seq data powered by the R package Seurat.
Domain-specific language designed to streamline the development of high-performance GPU/CPU/Accelerators kernels
scDataset: Scalable Data Loading for Deep Learning on Large-Scale Single-Cell Omics
The fastest memoizing and caching Python library written in Rust.
Collect information about dependencies between a github repo and other repositories. Results available in JSON, markdown and badge
Algorithmically create or extend categorical colour palettes
Creating beautiful plots of data maps
[MICCAI 2025] Official code for "Pre-Trained LLM is a Semantic-Aware and Generalizable Segmentation Booster"
Efficient data structures and IO for whole slide image analysis