This is the top level directory for the repository

https://github.com/CMUSchwartzLab/SCS_FISH

that contains a software (Multiple Inference with miFISH Optimizer (MIMO)) to solve several formulations of the problem of deconvolving bulk tumor data with assistance of single-cell sequencing and FISH data into subpopulations, as described in (Lei et al., in preparation)

Code and more information can be found in the subdirectory MIMO/MIMOsolver including a longer documentation file called MIMO/MIMOsolver/README.md.

The work flow of the model: we simulated ground truth from real Single-cell sequencing (SCS) data and deconvolve the bulk tumor with the simulated information to accurately infer the tumor heterogeneity, for more details, please refer to the paper.

Reference:

Haoyun Lei, E. Michael Gertz, Alejandro A. Schaffer, Heselmeyer-Haddad, Irianna Torres, Xulian Shi, Kui Wu, Guibo Li, Liqin Xu, Yong Hou, Michael Dean, Thomas Ried Russell Schwartz, Tumor heterogeneity assessed by sequencing and fluorescence in situ hybridization (FISH) data, in preparation.