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Simon Koplev's Projects

cnmf icon cnmf

Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data

d-chain icon d-chain

Global Bayesian drug response curve for systematic combinatorial drug synergy screen. Based on cell viability data.

lincs-milestones icon lincs-milestones

Milestones table view for LINCS data found at http://amp.pharm.mssm.edu/milestones

pan-cancer-protein-bimodality icon pan-cancer-protein-bimodality

Source code for analyzing protein bimodal expression from collection of pan-cancer cell lines, identifying epithelial-mesenchymal states and transcriptomic signature.

rseq icon rseq

A collection of programs for analyzing RNA-seq data.

starnet icon starnet

Source code for cross-tissue co-expression analysis of the STARNET multitissue gene expression data from cardiovascular disease patients.

starnet-site icon starnet-site

Back-end and front-end source code for STARNET website, hosted on starnet.mssm.edu

tutor-heatmap icon tutor-heatmap

Tutorial for making heatmaps in R with the heatmap.3 package.

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