ReactomePA

Use when inferring mechanistic causal links across multiple omics layers with COSMOS (Causal Oriented Search of Multi-Omics Space). Integrates metabolomics, transcriptomics, and signaling pathway data

2 shared topics • 1 shared operation

pathfindR is an R package for active-subnetwork-oriented pathway enrichment analysis. It maps a gene list (typically a differential expression result with fold-changes and p-values) onto a protein-pro

2 shared topics • 1 shared operation

Use when working with pathview, the R/Bioconductor package for KEGG pathway-based data integration and visualization. Covers overlaying gene expression data (fold changes, p-values, counts) onto KEGG

2 shared topics • 1 shared operation

Cellpose — generalist deep learning algorithm for cellular and nuclear segmentation in microscopy images. Provides GPU-accelerated 2D and 3D instance segmentation using gradient flow representations,

2 shared topics

scArches (Single-cell Architecture Surgery) — Python toolkit for reference-based single-cell data integration via transfer learning. Maps query datasets into pre-trained reference atlases using archit

2 shared topics