LEMONADE: Low-frEquency soMatic mutatiON cAlling using Deep sEquencing
LEMONADE is a computational tool for low-frequency mutation calling from deep-sequencing data based on empirical Bayesian framework. It is a companion software with Li et al., and is actively developed by WangLabHKUST.
To run LEMONADE for reproducing the result of mutation calling, please simply run main.m and it will automatically load the input data, call the mutations, and visualize the final result.
LEMONADE uses fdr.m to perform the multiple testing correction. The function fdr.m was developed by Anderson M. Winkler.
LEMONADE also used fastfit and lightspeed toolbox to generate the priors, which takes relatively long time and we directly provide the priors in the file input.mat for convenience.
Currently, the manuscript of LEMONADE is under review.