Man pages for jvanheld/stats4bioinfo
Utilities for the book "Statistics for bioinformatics"
| AUCfromROCtable | Compute the area under the ROC |
| featureColors | Given a vector of feature statuses (and optional positions),... |
| heatmap.simple | Draw a simple heatmap from a matrix, with values written in... |
| kmerFrequenciesToMarkov | Compute the parameters of a Markov model (transition matrix)... |
| meanEqualityTests | Multiple test for mean equality |
| meanEqualityTests.compareSignifFeatures | Return a contingency table for several tests with a... |
| meanEqualityTests.compareTwoTests | Compare the feature lists called significant by two tests... |
| meanEqualityTests.plotVolcano | Volcano plot from meanEqualityTest object |
| mulitpleTestingCorrections.plotCorrectedVsPval | Plot corrected p-values versus nominal p-value |
| mulitpleTestingCorrections.plotPvalDistrib | Multiple corrections for multiple testing |
| mulitpleTestingCorrections.plotSignifFeatures | Plot number of significant features as a function of the... |
| multipleTestingCorrections | Multiple corrections for multiple testing |
| plotPvalCompa | Draw an XY plot comparing two series of p-values (or... |
| plot.ROC | Plot a ROC curve |
| plotROCframe | Plot an empty frame to draw a ROC curve |
| randIndexDetailed | Compute Rand Contingency Index from a contingency table. |
| rnormPerGroup | Generate a data frame with random normal values sampled... |
| ROCstatistics | ROC statistics |
| rowwisePermGroupBalanced | Permute rows in a group-balanced way |
| rowwiseRandomNormal | Generate a data frame where each row follows a custom random... |
| rowwiseSample | Permute the values of each row of the input matrix or data... |
| sampleClasses | Resample the elements of a named vector (typically class... |
| seqToPSSM | Build a position-specific scoring matrix (PSSM) from a set of... |
| shadeArea | Plot a curve with a shaded area. |
| shadeTails | Plot a distribution and shade one or two tails. |
| stats4bioinfo | Statistics for bioinformatics - utilities and sample datasets |
| statsPerRow | Descriptive statistics on each row of the input matrix |
| stderPlot | Standard error plot |
| tTestPerRow | T-test (Student or Welch) on each row of a data frame. |
| tTestPerRow.bootstrap | Estimate robustness of tTestPerRow by running a bootstrap... |
| tTestPerRow.bootstrap.hist | Plot an histogram with a bootstrap test result. |
| tTestPerRow.bootstrap.VolcanoBoxPlot | Volcano box plot from the result of multiple student tests... |
| tTestPerRow.plotVolcano | Volcano plot from a tTestPerRow result object. |
| verbose | Display messages at a given verbosity level |
| VolcanoPlot | Draw a Volcano plot. |
| wilcoxTestPerRow | Run Wilcoxon rank-sum test (Mann-Whitney) on each row of a... |
