batch-separate_file_by_gene_presence_and_plot_histograms.pl

Program checks for all files in directory that start with and end with . The aim is to select results files from rpsblast-summary-V4.pl. Then it runs separate_file_by_gene_presence-v2.pl for each of this files using the program indicated in variable $separate_prog and the codon usage file indicated in . This separates the codon usage of each genomes based on the presence or absence of the gen of interest. Then it uses the results files to run program indicated in variable $plot_prog (codon_usage_by_gene_presence-ALL-V3.1.pl) to construct superposed histograms and box plots comparing the distribution of codon usages in genomes that present or lack each gene. It additionally calculates statistical significance of differences between populations based on T-test (suppose normal distribution, if populations are not normally distributed, use batch-separate_file_by_gene_presence_and_plot_histograms-Wilcoxon.pl).
All files in the indicated directory will be used to make plots in the same page of each pdf.
Please correct the path in variables $separate_prog and $plot_prog if the corresponding scripts are not in the path or current directory

Usage: perl batch-separate_file_by_gene_presence_and_plot_histograms.pl