tidySingleCellExperiment

chromVAR — R/Bioconductor package for determining variation in chromatin accessibility across sets of annotations or peaks. Designed for single-cell ATAC-seq (scATAC-seq) and sparse bulk ATAC-seq data

1 shared topic • 2 shared operations

Use when working with ggforce, the R package that extends ggplot2 with advanced geoms and statistical transformations for scientific visualization. Covers geom_mark_ellipse, geom_mark_hull, geom_mark_

1 shared topic • 2 shared operations

scJoint integrates atlas-scale single-cell RNA-seq and scATAC-seq data using transfer learning. Transfers cell type labels from annotated RNA datasets to unannotated ATAC datasets via joint neural net

1 shared topic • 2 shared operations

CellTypist — automated cell type annotation for scRNA-seq using logistic regression with pre-trained immune models, majority voting refinement, multi-label classification, custom model training, cross

1 shared topic • 1 shared operation

ConsensusClusterPlus — R/Bioconductor package for determining cluster count and membership by stability evidence in unsupervised analysis, implementing the Monti et al. (2003) consensus clustering alg

1 shared topic • 1 shared operation