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This repository holds the official source codes for the paper An Interpretable Graph-Regularized Optimal Transport Framework for Diagonal Single-Cell Integrative Analysis (GROTIA). It is a framework for joint analysis of unpaired scRNA-seq and scATAC-seq data. It provides two core capabilities:

1. GROTIA learns interpretable, modality-specific embeddings that project RNA and ATAC into a shared low-dimensional space while attaching an importance score to every gene or peak.
2. GROTIA converts the ...

Space to share Rare Disease Analyses

The Tree of Life Programme uses DNA sequencing and cellular technologies to investigate the diversity and origins of life on Earth. Our research covers all eukaryotic organisms, which means all complex life with a nucleus in their cells – that is every animal, plant, fungi and protist on the planet.

We use Nextflow and are building our own pipelines following the nf-core methodology. All our pipelines are on GitHub, https://github.com/sanger-tol, and are then listed and documented at ...