Man pages for GrosseLab/BGSC
Bayesian gene selection criterion (BGSC) approach
| comparativeMethod_qPCR.analysis | qPCR comparative Method |
| comparativeMethod_qPCR.EGF.log2FC | log2FC of EGF treatment for qPCR comparative Method |
| comparativeMethod_qPCR.RNAi.log2FC | log2FC of RNAi for qPCR comparative Method |
| Density.NV.fit.plot | Density plot for NV fit |
| ExpData | Expression data set of Glioblastoma cell line SF767 |
| f.input2 | Venndiagramm 2-Set |
| f.input3 | Venndiagramm 3-Set |
| f.input4 | Venndiagramm 4-Set |
| f.input5 | Venndiagramm 5-Set |
| f.input.list | Venndiagramm wrapper |
| f.input.list.All.subVenn | Venndiagramm wrapper to plot all sub venn diagram |
| get.gene.group | get Results of Posterior data |
| get.IC | get InformationCriterion |
| get.log2Mean.and.log2FC | normalize ExpData |
| get.Lset | set classes a,b,c and d |
| get.Posterior | get Posterior from BIC |
| Illumina_to_REFSEQ_MRNA | Illumina to REFSEQ_MRNA tabel GEOD.adf <- fread('Illumina... |
| InformationCriterion | calucate BIC and AIC |
| intersect3 | intersect 3-Set |
| intersect4 | intersect 4-Set |
| intersect5 | intersect 5-Set |
| logLikelihoodOfnormData | calucate the the log likelihood for each class for each gene |
| make.enrichment.data | make data for enrichment analysis |
| make.plot.data.exp.Ill.qPCR | make.plot.data.exp.Ill.qPCR |
| make.plot.data.FC.Ill.qPCR | make.plot.data.FC.Ill.qPCR |
| maxIndex | maxIndex of a vector |
| minIndex | minIndex of a vector |
| normalizeExpData | normalize ExpData |
| qPCR_SF767 | Delta CT values of RNAi treatment for SF767 |
| qPCR_SF767_LNZ308 | Delta CT values of EGF treatment for SF767 and LNZ308 |
| REFSEQ_MRNA_to_Illm | Convert REFSEQ_MRNA string from DAVID to Illumina ids |
| thememapBarplot | ggplot thememap for barplot |
| union3 | union 3-Set |
| union4 | union 4-Set |
| union5 | union 5-Set |
