load_landmarks_from_dir: Load landmark populations from a directory

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

Description

Load landmark populations from a directory

Usage

load_landmarks_from_dir(dir, ...)

Arguments

dir	A directory name. All the FCS files in the directory will be loaded
...	Arguments passed on to load_landmarks asinh.cofactor The cofactor to use for asinh transformation. If this is NULL no transformation is applied

Value

Returns a list with the following elements:

• landmarks.data: a data.frame containing the entirety of the data

• tab.landmarks: a data.frame with the data for the landmark nodes. Each row is a separate landmark population, and the columns correspond to the median expression values of each marker. The data.frame also contains a column called cellType which contains the name of the corresponding landmark. In order to derive the name of the landmark. the name of the corresponding FCS file is split on the "_" character, and the last field is used for the landmark name.

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