map_cl_summary: Map a dataset to a reference, and compare existing cluster...

In AllenInstitute/scrattch.hicat: Hierarchical Iterative Clustering Analysis for Transcriptomic data

Map a dataset to a reference, and compare existing cluster calls to the reference comparison

Description

Map a dataset to a reference, and compare existing cluster calls to the reference comparison

Usage

map_cl_summary(ref.dat, ref.cl, map.dat, map.cl, method = "median")

Arguments

ref.dat	Training data matrix, usually log-transformed CPM
ref.cl	Training cluster factor object
map.dat	Data for cells to map to the training set. Should have the same genes as train.dat.
map.cl	Cluster assignments for the training set to compare to results of mapping.
method	Which statistic to compare. "median" or "mean". Default is "median".

Value

a list object with two objects:

• map.df: A data.frame with the mapping results for each sample in map.dat to the reference

• cl.map.df: A data.frame with cluster-level frequency of mapping for each cluster in map.cl to ref.cl

AllenInstitute/scrattch.hicat documentation built on Oct. 20, 2023, 6:55 a.m.