Man pages for chandlerzuo/mbasic
Matrix Based Analysis for State-space Inference and Clustering.
| averageMGC | Compute the average mappability and GC scores over a set of... |
| bkng_mean | Compute the background means. |
| ChIPInputMatch | Match the ChIP files with input files. |
| generateReadMatrices | Map the reads for each pair of matched ChIP and input files... |
| generateSyntheticData | Generate synthetic BED data, M and GC files. |
| MBASIC | Bayesian clustering model for a state-space matrix. |
| MBASIC.binary | Bayesian clustering model for binary state matrix with prior... |
| MBASIC.binary.all | Bayesian clustering model for binary state matrix with prior... |
| MBASICFit-class | An S-4 class containing the model fit information for MBASIC... |
| MBASIC.full | Simultaneously fitting MBASIC model for different numbers of... |
| MBASIC.MADBayes | MAD-Bayes method to fit the MBASIC model. |
| MBASIC.MADBayes.full | MAD-Bayes method to fit the MBASIC model. |
| MBASIC.pipeline | The pipeline for fitting a MBASIC model for sequencing data. |
| MBASIC.sim | Simulate data for the general MBASIC model. |
| MBASIC.sim.binary | Simulate data for the MBASIC model with binary states. |
| MBASIC.sim.state | Simulate the state matrix for general MBASIC models. |
| MBASIC.state | Bayesian clustering model for a state-space matrix. |
| plot-methods | Plot the state probability for a fitted MBASIC model. |
| readReads | Read sequencing reads from either a BAM or a BED file. |
| write.out | Write the message to an output file. |
