1. Load the package | 2. Example Data set | 3. Pre-processing the data | 4. Determine the tuning parameter | 5. Run ClussCluster | Viewing Clustering Results | Cell-type-specific signature genes | 6. Plot | 7. References

Overview | Section 1 - Preliminaries | 1-1 Load SparseMDC | 1-2 Real Data Example:Biase Data | 1-3 Data Formatting | Section 2 - Preprocessing | Section 3 - Penalty Parameter Estimation | 3-1 $\lambda_{1}$ | 3-2 $\lambda_{2}$ | Section 4 - SparseMDC | 4-1 Apply SparseMDC | 4-2 Examine Results | 4-3 Housekeeping Marker Genes | 4-4 Condition-Dependent/Condition-Specific Marker Genes | References

Section 1 - Preliminaries | Real Data Example - Biase Data | Splitting the data | Section 2 - Pre-processing the data | Section 2 - Estimating the parameters | Estimating $\lambda_{1}$ | Estimating $\lambda_{2}$ | Section 3 - Running SparseDC | Viewing Results | Marker Genes | Condition-Specific and Condition-Dependent Marker Genes | Estimating the Number of Clusters in the Data via the Gap Statistic | References

1 Preliminaries | 1.1 Normalized Data Matrix | 1.2 The cell-cycle genes | 1.3 Putting it Together | 2 ccRemover | 2.1 Applying ccRemover | 2.2 Settings | References