cluster.members: Select members of a specific cluster

In HajkD/LTRpred: De novo functional annotation of retrotransposons

Select members of a specific cluster

Description

This function allows users to select all members of a specific cluster.

Usage

cluster.members(LTRpred.tbl, cluster = NULL)

Arguments

LTRpred.tbl	data.frame generated by LTRpred.
cluster	name of the cluster that shall be searched for.

Author(s)

Hajk-Georg Drost

See Also

clust2fasta

Examples

## Not run:  
# example prediction file generated by LTRpred 
pred.file <- system.file("Athaliana_TAIR10_chr_all_LTRpred_DataSheet.csv", package = "LTRpred")
# read LTRpred generated prediction file (data sheet)
pred <- read.ltrpred(pred.file)

# extract memebers of cluster 'cl_108'
cluster.members(pred, cluster = "cl_108")

# or safe the sequences of the cluster as fasta
pred2fasta(cluster.members(pred, cluster = "cl_108"), "cl_108_seqs.fa")

## End(Not run)

HajkD/LTRpred documentation built on April 22, 2022, 4:35 p.m.