Man pages for Kaiyu-W/DNBr
Compute the Dynamic Network Biomarkers (DNB) model
| CI | Critical index |
| combine_slot | combine_slot |
| compute_score_eachgroup | process function after modules have been defined |
| data.example | data.example |
| deltaPCC.test | statistical test for delta PCC |
| diffgenes.example | diffgenes.example |
| DNBcompute | DNBcompute |
| DNBcompute_custom | DNBcompute_custom |
| DNBcompute_custom.default | Compute the Dynamic Network Biomarkers(DNB) model with... |
| DNBcompute_custom.DNB_output | Compute the Dynamic Network Biomarkers(DNB) model with... |
| DNBcomputeSingle | Compute data of single group for all modules from pre-result,... |
| DNBcomputeSingle_DNB_obj | DNBcomputeSingle for DNB_obj |
| DNBcomputeSingle-DNB_obj-method | DNBcomputeSingle for DNB_obj |
| DNBfilter | DNBfilter |
| DNB_module-class | define S4 object of DNB_module |
| DNB_obj-class | define S4 object of DNB_obj, includes the raw data(matrix or... |
| DNBplot | DNBplot |
| DNBplot.data.frame | DNBplot for data.frame |
| DNBplot.DNB_output | DNBplot for S3:DNB_output |
| DNB_res-class | define S4 object of DNB_pre, includes the numeric results of... |
| flattenCorrMatrix | flattenCorrMatrix |
| getGlobalScore | getGlobalScore |
| getMaxRanking | getMaxRanking |
| getMaxRanking.DNB_output | Get the max Ranking of exactly group in S3:DNB_output after... |
| getModuleGenes | getModuleGenes |
| getModuleGenes.DNB_obj | Get the gene list of exactly module in S4:DNB_obj |
| getModuleGenes.DNB_output | Get the gene list of exactly module in S3:DNB_output |
| meta.example | meta.example |
| module_list.example | module_list.example |
| mycat | to print the process information |
| mycor | to ignore the warning and error of correlation computation |
| mynew.DNB_obj | initialize or generate the S4-DNB_obj |
| mynew.DNB_output | generate the S3-DNB_output or change the attribute of a list... |
| mynew.DNB_res | initialize or generate the S4-DNB_res |
| myprocess | Process function of each group data |
| NetworkCreate | NetworkCreate |
| PCCsum | PCCsum |
| plotScore | plotScore |
| print.DNB_output | show DNB_output |
| refNetworkCreate | refNetworkCreate |
| resultAllExtract | resultAllExtract |
| resultAllExtract.DNB_output | Get the whole result of slot pre_result or result from... |
| ScoreExtract | ScoreExtract |
| ScoreExtract.DNB_output | Extract the score information of @result from object... |
| sED | sample Expression Deviation |
| selectK | selectK |
| show-DNB_module-method | show DNB_module |
| show-DNB_obj-method | show DNB_obj |
| show-DNB_res-method | show DNB_res |
| singleDNB | Compute data for the modules list, and return score matrix |
| SSN-class | define S4 object of SSN |
| SSNcompute | SSNcompute |
| SSNnetwork-class | define S4 object of SSNnetwork |
| SSNscore | SSNscore |
| SSNscore-class | define S4 object of SSNscore |
| SSNscore_default | SSNscore_default |
| SSNscores-class | define S4 object of SSNscores |
