Correspondence Analysis for Single Cell Data

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Documentation for package ‘corral’ version 1.12.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

add_embeddings2scelist	Add embeddings to list of SCEs
all_are	all_are
biplot_corral	Generate biplot for corral object
compsvd	compsvd: Compute Singular Value Decomposition (SVD)
corral	corral: Correspondence analysis on a single matrix
corralm	Multi-table correspondence analysis (list of matrices)
corralm_matlist	Multi-table correspondence analysis (list of matrices)
corralm_sce	Multi-table correspondence analysis (list of matrices)
corral_mat	corral: Correspondence analysis on a single matrix
corral_preproc	Preprocess a matrix for SVD to perform Correspondence Analysis (CA)
corral_sce	corral: Correspondence analysis on a single matrix
earthmover_dist	Earthmover distance (and general Wasserstein distance)
get_pct_var_exp_svd	Compute percent of variance explained
get_weights	Get weights
list2mat	List to Matrix
na2zero	Set na to 0
pairwise_rv	Pairwise rv coefficient
plot_embedding	Plot selected PCs from an embedding
plot_embedding_sce	Plot selected PCs from an embedding saved in a SingleCellExperiment object
print.corral	corral: Correspondence analysis on a single matrix
print.corralm	Multi-table correspondence analysis (list of matrices)
rv	rv coefficient
scal_var	Generate a scaled variance plot for an integrative embedding
scal_var_mat	Generate a matrix of the scaled variance values
sce2matlist	SingleCellExperiment to list of matrices
trim_matdist	Trim extreme values in a pre-processed matrix
var_stabilize	Apply a variance stabilizing transformation