Man pages for liuqivandy/scRNABatchQC
a package for quality control of multiple single cell RNAseq data
| Bio_OnescRNAseq | process one scRNAseq dataset to generate biological metadata |
| Combine_scRNAseq | combine multiple scRNAseq datasets into one and generate QC... |
| generateReport | generate a QC report in a html file |
| plotAllPCA | plot PCA for the combined dataset |
| plotAlltSNE | plot tSNE for the combined dataset |
| plotAveCountVSdetectRate | plotAveCountVSdetectRate |
| plotDensity | plotDensity |
| plotDiffgenes | plot differentially expressed genes between any two datasets |
| plotDiffPathways | plot pathways enriched in differentially expressed genes |
| plotGeneCountDistribution | plot the gene count distribution |
| plotHVGs | plot HVGs |
| plotHVGsPathways | plot pathways enriched in HVGs |
| plotPCgenes | plot PC-related genes |
| plotPCPathways | plot pathways enriched in PC-related genes |
| plotSampleSimilarity | plot the similarity across sample sets |
| plotVarianceExplained | plot variance explained by one specific feature |
| plotVarianceTrend | plot Mean~variance trend |
| Process_OnescRNAseq | process one scRNAseq dataset to generate QC metadata |
| Process_scRNAseq | process scRNAseq datasets one by one to generate QC metadata |
| scRNABatchQC | QC across multiple scRNAseq datasets |
| Tech_OnescRNAseq | process one scRNAseq dataset to generate technical metadata |
