• SinCHet-MS: A MATLAB toolbox for analyzing single cell mass spectrometry (SCMS) heterogeneity. To be submitted.  The pre-compiled SinCHet-MS is available for download here. The User manual could be download here and source files here


  • DRepMel, a multiomics drug repurposing approach with a Shiny app, predicts combination therapies for melanoma patients by integrating exome sequencing, RNA-seq data, clinical outcomes and potential functional impact (using eQTL analysis) in two large independent melanoma patient cohorts. This also provides the potential impact on TME using scRNA-seq data from 28K cells from melanoma patients.  The user manual could be downloaded here



  • SinCHet: a MATLAB GUI toolbox for Single Cell Heterogeneity analysis in cancer. Bioinformatics 2017, 33(18):2951-2953. The SinCHet software is freely available for non-profit academic use.  You could download the source code here: or pre-compiled code here: SinCHet  Installation details are included in the SinCHet user manual here.


  • NNC (Nonparametric Nonlinear Correlation) - A Matlab toolbox for quantifying nonlinear correlation. Download the software as part of the supplements from our paper, Chen YA, Almeida JS, Richards AJ, Müller P, Carroll RJ, Rohrer B. A nonparametric approach to detect nonlinear correlation in gene expression. Journal of Computational and Graphical Statistics 2010, 19(3):552-568


 cancer patient single cell data