get_syntenic_genes {macrosyntR} | R Documentation |
get the syntenic genes as a table
Description
This is a function to extract all the syntenic genes from an orthologs_df. It requires as input an orthologs_df loaded by load_orthologs().
Usage
get_syntenic_genes(orthologs_df)
Arguments
orthologs_df |
dataframe. orthologs with genomic coordinates loaded by load_orthologs() |
Value
dataframe composed of details for each detected syntenic block of genes. It contains the following columns : sp1.Chr, sp1.Start, sp1.End, sp2.Chr, sp2.Start, sp2.End, size, sp1.IDs, sp2.IDs
See Also
Examples
# basic usage of get_syntenic_genes :
orthologs_table <- system.file("extdata","my_orthologs.tab",package="macrosyntR")
my_orthologs <- read.table(orthologs_table,header=TRUE)
my_syntenic_block_of_genes <- get_syntenic_genes(my_orthologs)
[Package macrosyntR version 0.3.3 Index]