added	atac/archR/dimensionality_reduction/metacells/atac_dimensionality_reduction_metacells.R
added	atac/archR/feature_stats/archR_calculate_feature_stats.R
added	atac/archR/feature_stats/plot_feature_stats_atac.R
added	atac/archR/gene_scores/add_GeneScore_matrices.R
added	atac/archR/gene_scores/compare_gene_scores.R
added	atac/archR/gene_scores/plot_genes_BrowserTrack_archR.R
added	atac/archR/load_archR_project.R
added	atac/archR/load_motif_annotation.R
added	atac/archR/metacells/aggregate_atac_metacell.R
added	atac/archR/metacells/compare_metacell_vs_singlecell_vs_pseudobulk_atac.R
added	atac/archR/peak_calling/README.txt
added	atac/archR/peak_calling/analysis/calculate_cpg_density_atac_peaks.R
added	atac/archR/peak_calling/analysis/calculate_peak_stats_archR.R
added	atac/archR/peak_calling/analysis/link_TFs2genes_motifmatchr.R
added	atac/archR/peak_calling/analysis/link_peaks2genes_genomic_distance.R
added	atac/archR/peak_calling/analysis/motifmatcher_analysis.R
added	atac/archR/peak_calling/analysis/plot_peak_calling_stats_archR.R
added	atac/archR/peak_calling/filter_peaks_archR.R
added	atac/archR/peak_calling/peak_calling_archR.R
added	atac/archR/plot_individual_peaks/compare_celltypes/plot_individual_peaks_compare_celltypes.R
added	atac/archR/plot_individual_peaks/compare_genotypes/plot_individual_peaks_compare_genotypes_cells_metacells_pseudobulk.R
added	atac/archR/plot_individual_peaks/compare_genotypes/pseudobulk_with_replicates/plot_individual_peaks_genotypes_pseudobulk_with_replicates.R
added	atac/archR/processing/0_create_arrow_files.R
added	atac/archR/processing/1_create_archR_project.R
added	atac/archR/processing/2_create_archR_metadata.R