Philosophy | Internals | Statistical Testing | Examples | Reading Data | Filtering | Significance testing under the Hurdle model | Two-sample Likelihood Ratio Test | Use with single cell RNA-sequencing data | A Comment on Implementation Details | References

Introduction | Log-transformation is expected in MAST | Examples | From MAST to Scater | From scater to MAST | Sparse matrix and HDF5 support | MAST and ZINB-wave | Using MAST to characterizing genes that drive the factors | References

Overview | Loading and transforming data | Exploratory Data Analysis | Filtering | Recalculating the cellular detection rate (ngeneson) | PCA on filtered cells | Exercises on loading and transforming data | Adaptive thresholding | Exercises on thresholding | Differential Expression using a Hurdle model | Visualization of 50 most differentially expressed genes | Visualizing both components | Heatmap of MAITs based on most differentially expressed genes | Exercises on hurdle model differential expression | Residuals | Gene Set Enrichment Analysis