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genoPlotR (version 0.7)

barto: Comparison of 4 Bartonella genomes

Description

Comparison of 4 Bartonella genomes by BLAST.

Usage

data(barto)

Arguments

format

barto, a list of three dataframes, representing the four genomes and their pairwise comparisons:
  • dna_segs
{which is a list of 4 dna_seg objects, containing all the protein genes for each genome. Obtained by reading ptt files downloaded from NCBI with read_dna_seg_from_ptt}. comparisons{which is a list of 3 comparison objects, obtained by doing genome-to-genome (fasta files) BLASTS, and then reading the resulting tab files with read_comparison_from_blast.} rnt_segs{which is a list of 4 dna_seg objects, containing all the RNA genes of the four genomes. Obtained by reading rnt files downloaded from NCBI with read_dna_seg_from_ptt}.

code

system.file('extdata/barto.sh', package = 'genoPlotR')

References

BLAST: http://www.ncbi.nlm.nih.gov/blast/

Examples

Run this code
data(barto)
plot_gene_map(barto$rnt_segs, barto$comparisons, gene_type="blocks")

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