Metrics for Similarity Matrices

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Documentation for package ‘matric’ version 0.2.0

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

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bin	Bin values into increasingly wider bins
cellhealth	Cell Painting dataset of CRISPR perturbations.
cellhealthmetrics	Quality metrics for Cell Painting dataset of CRISPR perturbations.
cosine_sparse	Compute similarity between pairs of rows of a matrix
drop_annotation	Drop row annotations.
get_annotation	Get row annotations.
get_p_value	Compute p-value against null distribution
matric	matric: Metrics for Similarity Matrices
null_distribution	Compute null distribution for a set of metrics
null_distribution_helper	Compute null distribution of metrics
pearson_sparse	Compute similarity between pairs of rows of a matrix
preprocess_data	Preprocess data. 'preprocess_data' preprocesses data.
sim_annotate	Annotate a melted similarity matrix.
sim_calculate	Calculate a melted similarity matrix.
sim_calculate_ij	Calculate similarities given pairs of rows
sim_collate	Collate several subsets of a melted similarity matrix, required for computing metrics.
sim_filter_all_same	Filter a melted similarity matrix to keep pairs with the same values in specific columns.
sim_filter_all_same_keep_some	Filter a melted similarity matrix to keep pairs with the same values in specific columns, and keep only some of these pairs.
sim_filter_keep_or_drop_some	Filter a melted similarity matrix to remove or keep specified rows.
sim_filter_some_different_drop_some	Filter a melted similarity matrix to keep pairs with the same values in specific columns, and other constraints.
sim_metrics	Compute metrics.
sim_metrics_helper	Helper function to compute metrics.
sim_metrics_signif	Report p-values for metrics
sim_new	Constructor for 'matric_sim' S3 class.
sim_plot	Plot a melted similarity matrix.
sim_read	Read similarity matrix.
sim_restore	Restorer for 'matric_sim' S3 class.
sim_validate	Validator for 'matric_sim' S3 class.
sim_wider	Widen a symmetric melted similarity matrix.
sim_write	Write similarity matrix.
sparse_pairwise	Compute similarity between pairs of rows of a matrix
sparse_similarity	Compute similarity between pairs of rows of a matrix
tcrossprod_ij	Compute cross product between two sets of rows of a matrix.