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CHAI: consensus clustering through similarity matrix integration for cell-type identification

Published in Briefings in Bioinformatics, 2024

Consensus clustering algorithm for scRNAseq cell-type identification

Recommended citation: Lodi MK, Lodi M, Osei K, Ranganathan V, Hwang P, Ghosh P. CHAI: Consensus Clustering Through Similarity Matrix Integration for Cell-Type Identification. Brief Bioinform. 2024;25(5):bbae411. doi:10.1093/bib/bbae411.

COFFEE: Consensus Single Cell-Type Specific Inference for Gene Regulatory Networks

Published in Briefings in Bioinformatics, 2024

Python software for wisdom of crowds marker gene inference on scRNAseq data.

Recommended citation: Lodi MK, Chernikov A, Ghosh P. COFFEE: Consensus Single Cell-Type Specific Inference for Gene Regulatory Networks. Brief Bioinform. 2024;25(6):bbae457. doi:10.1093/bib/bbae457.

CORTADO: Hill Climbing Optimization for Cell-Type Specific Marker Gene Discovery

Published in Biorxiv, 2024

Python package for robust single cell marker gene inference

Recommended citation: Lodi MK, Clark L, Roy S, Ghosh P. CORTADO: Hill Climbing Optimization for Cell-Type Specific Marker Gene Discovery. bioRxiv [Preprint]. 2024 Dec 23:2024.12.23.630040. doi:10.1101/2024.12.23.630040. PMID: 39763976; PMCID: PMC11703242.

Teaching experience 1

Undergraduate course, University 1, Department, 2014

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Teaching experience 2

Workshop, University 1, Department, 2015

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