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.gitignore
.gitignore
 
 
Cromie_distances_2.mat
Cromie_distances_2.mat
 
 
MAIN.m
MAIN.m
 
 
NaturalIsolates_GeneticDistance_CorrelationData.mat
NaturalIsolates_GeneticDistance_CorrelationData.mat
 
 
NaturalIsolates_correlation_setpoint_genetic distance.pdf
NaturalIsolates_correlation_setpoint_genetic distance.pdf
 
 
README.md
README.md
 
 
Set_fig_RE.m
Set_fig_RE.m
 
 
SetpointPhylogeny.m
SetpointPhylogeny.m
 
 
Strain_conversion_table.mat
Strain_conversion_table.mat
 
 
T_test_walking.m
T_test_walking.m
 
 
add_entry_log.m
add_entry_log.m
 
 
all_strains_names.mat
all_strains_names.mat
 
 
all_strains_vals_vector.mat
all_strains_vals_vector.mat
 
 
compute_ANOVA.m
compute_ANOVA.m
 
 
compute_ANOVA_to_compare_groups.m
compute_ANOVA_to_compare_groups.m
 
 
compute_area.m
compute_area.m
 
 
compute_area_metric_meiotic_segregants.m
compute_area_metric_meiotic_segregants.m
 
 
compute_average_coefficient_of_variation.m
compute_average_coefficient_of_variation.m
 
 
compute_average_standard_deviation.m
compute_average_standard_deviation.m
 
 
compute_conversion_rate_between_BC187_YJM978.m
compute_conversion_rate_between_BC187_YJM978.m
 
 
compute_correlation_galactose_glucose.m
compute_correlation_galactose_glucose.m
 
 
compute_correlation_genetic_distance_set_point_induction.m
compute_correlation_genetic_distance_set_point_induction.m
 
 
compute_correlation_natural_isolates_allele_replacements.m
compute_correlation_natural_isolates_allele_replacements.m
 
 
compute_error_propagation_sum.m
compute_error_propagation_sum.m
 
 
compute_fit.m
compute_fit.m
 
 
compute_fold_difference.m
compute_fold_difference.m
 
 
compute_fold_difference_across_backgrounds.m
compute_fold_difference_across_backgrounds.m
 
 
compute_mean_data_output.m
compute_mean_data_output.m
 
 
compute_mean_natural_isos.m
compute_mean_natural_isos.m
 
 
compute_percent_difference_between_replicates.m
compute_percent_difference_between_replicates.m
 
 
compute_range_of_variation.m
compute_range_of_variation.m
 
 
compute_setpoints.m
compute_setpoints.m
 
 
compute_setpoints_reference_BC187.m
compute_setpoints_reference_BC187.m
 
 
compute_setpoints_reference_BC187_galactose.m
compute_setpoints_reference_BC187_galactose.m
 
 
compute_standard_error.m
compute_standard_error.m
 
 
data_meiotic_segregants.mat
data_meiotic_segregants.mat
 
 
determine_GeneticDistance.m
determine_GeneticDistance.m
 
 
determine_index.m
determine_index.m
 
 
determine_strains_in_Cromie.m
determine_strains_in_Cromie.m
 
 
driver_main_figures.m
driver_main_figures.m
 
 
errorbarxy.m
errorbarxy.m
 
 
export_fig_specific_path.m
export_fig_specific_path.m
 
 
extract_data.m
extract_data.m
 
 
fig4.m
fig4.m
 
 
fig5.m
fig5.m
 
 
files_to_remove.txt
files_to_remove.txt
 
 
filterData_onlyforNaturalIsolates.m
filterData_onlyforNaturalIsolates.m
 
 
filter_SetPointsNormalized.m
filter_SetPointsNormalized.m
 
 
format_fig.m
format_fig.m
 
 
get_genetic_distance.m
get_genetic_distance.m
 
 
get_genetic_distance_one_stain.m
get_genetic_distance_one_stain.m
 
 
highlight_in_correlation_plot.m
highlight_in_correlation_plot.m
 
 
make_dot_plot.m
make_dot_plot.m
 
 
meiotic_segregants.mat
meiotic_segregants.mat
 
 
nancorr.m
nancorr.m
 
 
natural_isos_ref.m
natural_isos_ref.m
 
 
plot_compute_meiotic_segregants.m
plot_compute_meiotic_segregants.m
 
 
plot_correlation_highlight_points.m
plot_correlation_highlight_points.m
 
 
plot_distribution.m
plot_distribution.m
 
 
plot_figure_mean_error_bar.m
plot_figure_mean_error_bar.m
 
 
plot_figure_mean_error_bar_side_histogram.m
plot_figure_mean_error_bar_side_histogram.m
 
 
plot_hist_BC187_vals.m
plot_hist_BC187_vals.m
 
 
plot_meiotic_segregants.m
plot_meiotic_segregants.m
 
 
remove_nan_rows.m
remove_nan_rows.m
 
 
replace_strain.m
replace_strain.m
 
 
set_xaxis.m
set_xaxis.m
 
 
set_yaxis.m
set_yaxis.m
 
 
setpoints_normalized_filtered.mat
setpoints_normalized_filtered.mat
 
 
short_strain_name.m
short_strain_name.m
 
 
strainSources.mat
strainSources.mat
 
 
strainsPaper_totalReplicates.mat
strainsPaper_totalReplicates.mat
 
 
unique_strains_figure_table.mat
unique_strains_figure_table.mat
 
 
wmean.m
wmean.m
 
 

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Analysis_data_create_figure

Analysis of data to create figures for paper on phenotypic variation.

This version creates raw data figures with replicates.

The main script is compute_setpoints_reference_BC187.m

The script driver_main_figures.m plots all the figures of the paper to the output path

The script Set_fig_RE.m was moved to this folder so that changes in the figures are global.

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Analysis of data to create figures for paper on phenotypic variation

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