Stars
RNA-seq Data Processing, Quantification and Annotation Snakemake Workflow and MrBiomics Module.
Workflow to Fetch Public Sequencing Data and Metadata Using iSeq and MrBiomics Module.
Ultimate ATAC-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…
MrBiomics: Modules & Recipes augment Bioinformatics for Multi-Omics Analyses
A Snakemake workflow and MrBiomics module for performing and visualizing differential (expression) analyses (DEA) on 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.
Accessible and interoperable whole slide image analysis
A Python package for the processing of whole slide histopathological images
Efficient data structures and IO for whole slide image analysis
Declarative creation of composable visualization for Python (Complex heatmap, Upset plot, Oncoprint and more~)
Spacedrive is an open source cross-platform file explorer, powered by a virtual distributed filesystem written in Rust.
Install and Run Python Applications in Isolated Environments
🔄 Hot module reload for python, automatically reload your code when files are modified. No need to modify source code.