Man pages for compcodeR
RNAseq data simulation, differential expression analysis and performance comparison of differential expression methods
| baySeq.createRmd | Generate a '.Rmd' file containing code to perform... |
| check_compData | Check the validity of a 'compData' object |
| check_compData_results | Check the validity of a 'compData' result object |
| checkDataObject | Check a list or a 'compData' object for compatibility with... |
| checkTableConsistency | Check consistency of input table to 'runComparison' |
| compcodeR-package | RNAseq data simulation, differential expression analysis and... |
| compData | Create a 'compData' object |
| compData-class | Class compData |
| convertcompDataToList | Convert a 'compData' object to a list |
| convertListTocompData | Convert a list with data and results to a 'compData' object |
| DESeq2.createRmd | Generate a '.Rmd' file containing code to perform... |
| DSS.createRmd | Generate a '.Rmd' file containing code to perform... |
| EBSeq.createRmd | Generate a .Rmd file containing code to perform differential... |
| edgeR.exact.createRmd | Generate a '.Rmd' file containing code to perform... |
| edgeR.GLM.createRmd | Generate a '.Rmd' file containing code to perform... |
| generateCodeHTMLs | Generate HTML file(s) containing code used to run... |
| generateSyntheticData | Generate synthetic count data sets |
| listcreateRmd | List available *.createRmd functions |
| logcpm.limma.createRmd | Generate a '.Rmd' file containing code to perform... |
| NBPSeq.createRmd | Generate a '.Rmd' file containing code to perform... |
| NOISeq.prenorm.createRmd | Generate a '.Rmd' file containing code to perform... |
| runComparison | Run the performance comparison between differential... |
| runComparisonGUI | A GUI to the main function for running the performance... |
| runDiffExp | The main function to run differential expression analysis |
| show-compData-method | Show method for 'compData' object |
| sqrtcpm.limma.createRmd | Generate a '.Rmd' file containing code to perform... |
| summarizeSyntheticDataSet | Summarize a synthetic data set by some diagnostic plots |
| TCC.createRmd | Generate a '.Rmd' file containing code to perform... |
| ttest.createRmd | Generate a '.Rmd' file containing code to perform... |
| voom.limma.createRmd | Generate a '.Rmd' file containing code to perform... |
| voom.ttest.createRmd | Generate a '.Rmd' file containing code to perform... |
