match.2col: Check the consistency of the first two columns of different...

In iCAMP: Infer Community Assembly Mechanisms by Phylogenetic-Bin-Based Null Model Analysis

Check the consistency of the first two columns of different matrixes

Description

This function is usually used to check the consistency of samples names in different pairwise comparison matrixes.

Usage

match.2col(check.list, name.check = NULL, rerank = TRUE, silent = FALSE)

Arguments

check.list	List, each element is a matrix. It must be set in a format like "check.list=list(A=A,B=B)". The first two columns of the matrixes will be compared and matched with each other.
name.check	matrix, the first two columns will be used as a standard. The pairs not appear in this matrix will be removed from all matrixes.
rerank	Logic, make the first two columns in all matrixes in the same rank or not. Default is TRUE.
silent	Logic, whether to show messages. Default is FALSE, thus all messages will be showed.

Details

A tool to match IDs.

Value

Return a list object, new matrixes with the same first two columns. Some messages will return if some names are removed or all names matches very well.

Note

Version 2: 2020.8.19, add example. Version 1: 2018.10.20

Author(s)

Daliang Ning

Examples

# here two simple matrixes are generated and the pairwise comparison IDs not matched are removed.
A=1:5
names(A)=paste0("S",1:5)
B=1:6
names(B)=paste0("S",1:6)
DA3c=dist.3col(dist(A))
DB3c=dist.3col(dist(B))

checkid=match.2col(check.list = list(DA3c=DA3c,DB3c=DB3c))
DA3cnew=checkid$DA3c
DB3cnew=checkid$DB3c

iCAMP documentation built on June 1, 2022, 9:08 a.m.