AnalyzeInterSpecificity: Analyze Gene Pairs by Specificity

In ZJUDBlab/InterCellDB: Tool and Database for Analyzing Interactions

Analyze Gene Pairs by Specificity

Description

This function is used to evaluate specificity for gene pairs from one interaction. In other word, it explores every gene pair with all its occuring interactions. The one interaction is controlled by FetchInterOI.

Usage

AnalyzeInterSpecificity(
  object,
  to.cmp.cluster.groups = character(),
  extended.search = FALSE,
  uq.cnt.options = c(1:100)
)

Arguments

object	A InterCell object, which is created by CreateInterCellObject.
to.cmp.cluster.groups	It gives the interactions (cluster groups) to be compared. ListClusterGroups helps to give the names of interactions.
extended.search	Decide whether to add more gene pairs (those from compared cluster groups) into analysis.
uq.cnt.options	Integer. It defines the allowed co-occurence count of one gene pair, and count goes larger impling lower specificity. The recommended value is 1:(length(to.cmp.cluster.groups) + 1).

Value

A InterCell object.

ZJUDBlab/InterCellDB documentation built on March 19, 2023, 4:56 p.m.