Man pages for AbhishekSinha28/tcgaCleaneR
TGCA Data Analysis
| brca.data | TCGA Breast Cancer Data |
| checkNegCtrlGenes | Check Unwanted variation in Negative Control Genes |
| computeANOVA | Anova test for batch effect on individual gene expressions |
| computeCorr | Gene Correlation analysis |
| computePCA | Generate PCA |
| createPRPS | Generate PRPS for RUV-III |
| filterGenesByBiotypes | Gene Filter |
| filterLowExprGenes | Low Count Genes Filter |
| filterSamplesByLibSize | Filter Samples based on Library Size |
| filterSamplesByPurity | Filter Samples based on Tumor Purity |
| plotLibSize | Library Size |
| plotPC | PCA Visualization |
| plotPCsVar | Regression Analysis between PCs and unwanted variation |
| plotPRPS | RUV-III PRPS Map |
| plotStudyOutline | Study Design Plot |
| runRUVIII | Generate RUV-III Data Object |
| runRUV_III_PRPS | Generate RUV-III Data Object |
