gc_position: Extract ORF Positions for One Specific Gene Cluster

In gclink: Gene-Cluster Discovery, Annotation and Visualization

Extract ORF Positions for One Specific Gene Cluster

Description

Internal helper used by gc_cal. Given the ordered positions of all reference genes on a contig (Data) and the vector of cluster breakpoints produced by gc_cluster (Cluster), this function slices Data to return the positions that belong to the EachCluster-th cluster.

Usage

gc_position(
  Data = orf_position.tmp,
  Cluster = cluster.tmp,
  EachCluster = eachcluster
)

Arguments

Data	A numeric vector (ascending order) of ORF positions that carry one of the reference genes of interest. Usually the vector orf_position.tmp created inside gc_cal.
Cluster	Numeric vector returned by gc_cluster; each element marks the last position of a candidate cluster.
EachCluster	Integer index specifying which cluster to extract (1 = first cluster, 2 = second cluster, …).

Value

A numeric vector containing the ORF positions that constitute the requested gene cluster.

gclink documentation built on Sept. 9, 2025, 5:39 p.m.