Machine Learning for Integrative Genomics lab

Circe

Co-accessibility network from single-cell ATAC-seq data. Python code, based on Cicero package (R).

HuMMuS

Molecular interactions inference from single-cell multi-omics data

momix-notebook

Mowgli

Single-cell multi-omics integration using Optimal Transport

mowgli_reproducibility

Data and scripts to reproduce experiments for Mowgli.

OT-scOmics

This Python package will allow you to replicate the experiments from our research on applying Optimal Transport as a similarity metric in between single-cell omics data.

scconfluence

A novel method for single-cell diagonal integration: scConfluence

scPRINT

single cell foundation model for Gene network inference and more

scPRINT-old1

Single Cell Pretrained Regulatory network INference from Transcripts

stories

Learning cell fate landscapes from spatial transcriptomics using Fused Gromov-Wasserstein

cantinilab/momix-notebook

cantinilab/Mowgli

Single-cell multi-omics integration using Optimal Transport

cantinilab/scPRINT

single cell foundation model for Gene network inference and more

cantinilab/OT-scOmics

This Python package will allow you to replicate the experiments from our research on applying Optimal Transport as a similarity metric in between single-cell omics data.

cantinilab/HuMMuS

Molecular interactions inference from single-cell multi-omics data

cantinilab/scconfluence

A novel method for single-cell diagonal integration: scConfluence

cantinilab/Circe

Co-accessibility network from single-cell ATAC-seq data. Python code, based on Cicero package (R).

cantinilab/scPRINT-old1

Single Cell Pretrained Regulatory network INference from Transcripts

cantinilab/stories

Learning cell fate landscapes from spatial transcriptomics using Fused Gromov-Wasserstein

cantinilab/mowgli_reproducibility

Data and scripts to reproduce experiments for Mowgli.

cantinilab/scNET

jupyther notebook comparing reproducibility of single-cell network inference algorithms

cantinilab/GRnnData

Awesome GRN enhanced AnnData toolkit

cantinilab/stories_reproducibility

STORIES: Learning cell fate landscapes from spatial transcriptomics using Fused Gromov-Wasserstein

cantinilab/scc_reproducibility

cantinilab/.github

home page

cantinilab/benGRN

Awesome Benchmark of Gene Regulatory Networks

cantinilab/scDataLoader

a dataloader to work with large single cell datasets from lamindb