Man pages for scRepertoire
A toolkit for single-cell immune receptor profiling
| abundanceContig | Demonstrate the relative abundance of clonotypes by group or... |
| addVariable | Adding variables after the combination of contigs. |
| alluvialClonotypes | Exploring interaction of clonotypes by seurat or SCE dynamics |
| clonalDiversity | Examine the clonal diversity of samples |
| clonalHomeostasis | Examining the clonal homeostasis |
| clonalOverlap | Examining the clonal overlap between groups or samples |
| clonalProportion | Examining the clonal space occupied by specific clonotypes |
| clonesizeDistribution | Hierarchical clustering of clonotypes on clonotype size and... |
| combineBCR | Combining the list of B Cell Receptor contigs |
| combineExpression | Adding clonotype information to a seurat or SCE object |
| combineTCR | Combining the list of T Cell Receptor contigs |
| compareClonotypes | Demonstrate the difference in clonal proportion between... |
| contig_list | A data set of T cell contigs as a list outputed from the... |
| expression2List | Allows users to take the meta data in seurat/SCE and place it... |
| getCirclize | Generate data frame to be used with circlize R package to... |
| highlightClonotypes | Highlighting specific clonotypes in Seurat |
| lengthContig | Demonstrate the distribution of lengths filtered contigs. |
| occupiedscRepertoire | Visualize the number of single cells with clonotype... |
| quantContig | Quantify the unique clonotypes in the filtered contigs. |
| screp_example | A seurat object of 1000 single T cells derived from 3 clear... |
| stripBarcode | Removing any additional prefixes to the barcodes of filtered... |
| subsetContig | Subset the product of combineTCR() combineBCR() or... |
| vizVgenes | Visualizing the distribution of TCR V gene usage |
