pipeComp pipeline benchmarking framework
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Documentation for package ‘pipeComp’ version 1.12.0
Help Pages
| pipeComp-package | pipeComp - a framework for pipeline benchmarking |
| $-method | Methods for 'PipelineDefinition' class |
| addPipelineStep | addPipelineStep |
| aggregatePipelineResults | aggregatePipelineResults |
| arguments | Methods for 'PipelineDefinition' class |
| arguments-method | Methods for 'PipelineDefinition' class |
| as.list-method | Methods for 'PipelineDefinition' class |
| buildCombMatrix | buildCombMatrix |
| checkPipelinePackages | checkPipelinePackages |
| clustMetricsCorr | Correlations across clustering evaluation metrics |
| colCenterScale | colCenterScale |
| ctrlgenes | Lists of control genes |
| dea_evalPlot_curve | dea_evalPlot_curve |
| dea_pipeline | dea_pipeline |
| defaultArguments | Methods for 'PipelineDefinition' class |
| defaultArguments-method | Methods for 'PipelineDefinition' class |
| defaultArguments<- | Methods for 'PipelineDefinition' class |
| defaultArguments<--method | Methods for 'PipelineDefinition' class |
| defaultStepAggregation | defaultStepAggregation |
| evalHeatmap | evalHeatmap |
| evaluateClustering | evaluateClustering |
| evaluateDEA | evaluateDEA |
| evaluateDimRed | evaluateDimRed |
| evaluateNorm | evaluateNorm |
| exampleDEAresults | Example results from the DEA pipeline |
| exampleResults | Example pipeline results |
| farthestPoint | farthestPoint |
| getDimensionality | getDimensionality |
| getQualitativePalette | getQualitativePalette |
| length-method | Methods for 'PipelineDefinition' class |
| match_evaluate_multiple | match_evaluate_multiple |
| mergePipelineResults | mergePipelineResults |
| mockPipeline | mockPipeline |
| names-method | Methods for 'PipelineDefinition' class |
| names<--method | Methods for 'PipelineDefinition' class |
| parsePipNames | parsePipNames |
| pipeComp | pipeComp - a framework for pipeline benchmarking |
| PipelineDefinition | PipelineDefinition |
| PipelineDefinition-class | PipelineDefinition |
| PipelineDefinition-method | Methods for 'PipelineDefinition' class |
| PipelineDefinition-methods | Methods for 'PipelineDefinition' class |
| plotElapsed | plotElapsed |
| readPipelineResults | readPipelineResults |
| runPipeline | runPipeline |
| scrna_describeDatasets | scrna_describeDatasets |
| scrna_evalPlot_filtering | scrna_evalPlot_filtering |
| scrna_evalPlot_overall | scrna_evalPlot_overall |
| scrna_evalPlot_silh | scrna_evalPlot_silh |
| scrna_pipeline | scrna_pipeline |
| show-method | Methods for 'PipelineDefinition' class |
| stableG | Lists of stable genes |
| stepFn | Methods for 'PipelineDefinition' class |
| stepFn-method | Methods for 'PipelineDefinition' class |
| stepFn<- | Methods for 'PipelineDefinition' class |
| stepFn<--method | Methods for 'PipelineDefinition' class |
| [-method | Methods for 'PipelineDefinition' class |