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| # Generic deconvolution method with known cellular compositions | ||
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| We developed a simple, generic maximum-likelihood based convolution model. | ||
| The method is based on a probability generating function (PGF) that approximate convoluted random variable. | ||
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| The R scripts in this folder allows users to compare log-normal (LN) convolution and Negative binomial (NB) convolution models to perform deconvolution on real TCGA data. | ||
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| - `install.R`: A script to install dependencies. | ||
| - `source_estmusigmadist2.R`: core functions for PGF deconvolution | ||
| - `LogNormalvsNB_TCGA.R`: A script to compare Negative Binomial and Log-normal distribution for deconvolution. | ||
| - `LogNormalvsNB_TCGA.html`: A knitted html report generated from `LogNormalvsNB_TCGA.R` | ||
| - `TCGA-MESO.RData`/`TCGA-SARC.RData`: Gene expression data of two TCGA cohorts (mesothelioma and sarcoma) |