distance_from_attractor_hard_filter: Remove connections to landmark nodes based on an expression...

In ParkerICI/scgraphs: Analyzing single-cell data using graphs

Description

This function removes connections to a landmark node, in cases where the expression of all markers for that landmark is less than a threshold. This is useful when mapping data that contains markers which are all expected to be absent in certain landmarks

Usage

distance_from_attractor_hard_filter(dd, tab, col.names, thresh = 0.5)

Arguments

dd	A matrix of cosine similarity values between cluster nodes (rows) and landmark nodes (columns)
tab	A data.frame containing the data (median expression values) for the landmark nodes
col.names	A vector of colum names to be used for the computation
thresh	The threshold to use. Connections to landmarks for which the expression of all the markers is < thresh, will be removed

Value

Returns the same dd matrix, but with the values corresponding to the connections that have been removed set to 0

ParkerICI/scgraphs documentation built on April 30, 2021, 1:10 p.m.