API for EDDA
Experimental Design in Differential Abundance analysis
| Global functions | |
|---|---|
| BP | Man page |
| Cuffdiff | Source code |
| Cuffdiff_edda | Source code |
| Cuffdiff_nde | Source code |
| Cuffdiff_uqn | Source code |
| DEG.list | Source code |
| DEG.q | Source code |
| DL.plot | Source code |
| DLbio.dat | Source code |
| DLbio.plot | Source code |
| DLbio2.plot | Source code |
| EDDA | Man page |
| EDDA-package | Man page |
| HBR | Man page |
| Lplot | Source code |
| Lplot2 | Source code |
| MA | Source code |
| MD | Source code |
| MD.plot | Source code |
| MODEnormalization | Source code |
| SingleCell | Man page |
| UQNnormalization | Source code |
| Wu | Man page |
| biodetection | Source code |
| busca | Source code |
| calc_qvalues | Source code |
| calc_twosample_ts | Source code |
| call_cuffdiff | Source code |
| cd.plot | Source code |
| computeAUC | Man page Source code |
| computeROC_list | Source code |
| computeROC_matrix | Source code |
| countbio.plot | Source code |
| countsbio.dat | Source code |
| detect_differentially_abundant_feaTRUEs | Source code |
| equalizeLibSizesMode | Source code |
| estimateCommonDispMode | Source code |
| exactTestMode | Source code |
| fdrdata | Source code |
| fdrplot | Source code |
| filterGenesByCounts | Source code |
| fisher.ngs | Source code |
| generateData | Man page Source code |
| int.mult | Source code |
| learn_parameter_DESeq | Source code |
| learn_parameter_edgeR | Source code |
| load_frequency_matrix | Source code |
| long.int | Source code |
| n.menor | Source code |
| noceros | Source code |
| noiseq | Source code |
| noiseqsim | Source code |
| normalizeData | Source code |
| normalizeNDE | Source code |
| outliers | Source code |
| peaks | Source code |
| permute_and_calc_ts | Source code |
| permuted_pvalues | Source code |
| plot.y2 | Source code |
| plotPRC | Man page Source code |
| plotROC | Man page Source code |
| prdata | Source code |
| probdeg | Source code |
| prplot | Source code |
| ranking | Source code |
| readData | Source code |
| readInfo | Source code |
| receive_frequency_matrix | Source code |
| rocdata | Source code |
| rocplot | Source code |
| rpkm | Source code |
| run_Cuffdiff | Source code |
| run_Cuffdiff_Mode | Source code |
| run_Cuffdiff_nde | Source code |
| run_Cuffdiff_uqn | Source code |
| run_DESeq | Source code |
| run_DESeq_Mode | Source code |
| run_DESeq_nde | Source code |
| run_DESeq_uqn | Source code |
| run_MetaStats | Source code |
| run_MetaStats_Mode | Source code |
| run_MetaStats_nde | Source code |
| run_MetaStats_uqn | Source code |
| run_NOISeq | Source code |
| run_NOISeq_Mode | Source code |
| run_NOISeq_nde | Source code |
| run_NOISeq_uqn | Source code |
| run_baySeq | Source code |
| run_baySeq_Mode | Source code |
| run_baySeq_nde | Source code |
| run_baySeq_uqn | Source code |
| run_edgeR | Source code |
| run_edgeR_Mode | Source code |
| run_edgeR_nde | Source code |
| run_edgeR_uqn | Source code |
| satur.plot | Source code |
| satur.plot2 | Source code |
| saturbio.dat | Source code |
| saturbio.plot | Source code |
| sim.samples | Source code |
| sim.samples2 | Source code |
| sinceros | Source code Source code |
| tablacont | Source code |
| testDATs | Man page Source code |
| tmm | Source code |
| uni.mult | Source code |
| uqua | Source code |
