Rerun_paper_github.txt

# Generates META heart object
Rscript ./analyses/main_objects/make_metaheart.R;

# Creating object of external data sets
Rscript ./analyses/main_objects/make_external_metaheart.R;

# Creating object of fetal data sets
Rscript ./analyses/main_objects/make_fetal_metaheart.R;

# Differential expression analysis - ran in make_metaheart.R
# Rscript ./analyses/main/de_analysis.R;

# Plotting statistics
Rscript ./analyses/sup/deg_stats.R;
Rscript ./analyses/figures/sup/deg_stats.R;

# Marker genes
Rscript ./analyses/figures/sup/HF_marker_genes.R;

# Data description: PCAs of all data and z-transformed data
Rscript ./analyses/sup/general_variability.R;
# Figure
Rscript ./analyses/figures/sup/gen_var_figs.R;

# Data description: gene centered data
Rscript ./analyses/sup/gene_centered_analysis.R;
# Figure
Rscript ./analyses/figures/sup/gcentered_figs.R;

# Data description: DCM vs ICM for gene std matrices
Rscript ./analyses/sup/dcm_vs_icm.R;
#Figure
Rscript ./analyses/figures/sup/dcm_vs_icm_figs.R;

# Reproducibility/Replicability
Rscript ./analyses/main/study_comparison.R;
# Figure
Rscript ./analyses/figures/main/reproducibility_figs.R;

# Robustness of measurements
Rscript ./analyses/sup/robustness_glist_size.R;
Rscript ./analyses/figures/sup/robustness_es_ds.R;

# Meta-analysis
Rscript ./analyses/main/get_metaranking.R;
Rscript ./analyses/figures/main/meta_main.R;

# Added value
Rscript ./analyses/main/added_value.R;

# Selection of top genes
Rscript ./analyses/sup/genes_best_performance.R;
# Figure
Rscript ./analyses/figures/sup/best_perf_figs.R;

# Gene level variability, takes time
Rscript ./analyses/sup/gene_variability.R;
# Figure
Rscript ./analyses/figures/sup/gene_variability_anova.R;

# Funcomics
Rscript ./analyses/main/functional_analysis.R;
# Figure
Rscript ./analyses/figures/main/funcomics_bars.R;

# External datasets
Rscript ./analyses/main/DS_Fetal_External.R;
Rscript ./analyses/figures/main/DS_Fetal_External_plotting.R;