API for bryancquach/omixjutsu
Utilities for omics analysis tasks
| Global functions | |
|---|---|
| assoc_matrix | Man page Source code |
| below_max_cutoff | Man page Source code |
| beta_to_mvalue | Man page Source code |
| cooks_outlier_pval_histogram | Man page Source code |
| counts.DGEList | Man page Source code |
| exceeds_min_cutoff | Man page Source code |
| filter_dds_features | Man page Source code |
| filter_table | Man page Source code |
| get_cooks_cutoff | Man page Source code |
| get_cooks_outliers | Man page Source code |
| get_design_mat | Man page Source code |
| get_gencode_chr_y_gene_ids | Man page Source code |
| get_gencode_mitochondrial_ids | Man page Source code |
| get_gencode_rrna_ids | Man page Source code |
| get_matrix_r2 | Man page Source code |
| get_residual_matrix | Man page Source code |
| ggpca | Man page Source code |
| ggscatter | Man page Source code |
| grouped_barplot | Man page |
| hist_boxplot | Man page Source code |
| hist_boxplot2 | Man page Source code |
| ihw_diagnostic_plots | Man page Source code |
| ihw_partitioned_pval_weights | Man page Source code |
| ihw_pval_cdf | Man page Source code |
| ihw_pval_comparison | Man page Source code |
| ihw_pval_decision_boundary | Man page Source code |
| ihw_pval_ridges | Man page Source code |
| ihw_pval_scatter | Man page Source code |
| ihw_stratified_pval_hist | Man page Source code |
| load_paired_end_qc_data | Man page Source code |
| low_expression_filter | Man page Source code |
| low_expression_filter.DESeqDataSet | Man page Source code |
| low_expression_filter.DGEList | Man page Source code |
| low_expression_filter.matrix | Man page Source code |
| ma_plot | Man page Source code |
| ma_plot.DESeqResults | Man page Source code |
| ma_plot.data.frame | Man page Source code |
| make_gencode_gene_id_map | Man page Source code |
| matrix_heatmap | Man page |
| merge_txi | Man page Source code |
| mvalue_to_beta | Man page Source code |
| parse_by_trim_status | Man page Source code |
| per_sample_count_distribution | Man page Source code |
| per_sample_count_distribution.DESeqDataSet | Man page Source code |
| per_sample_count_distribution.DGEList | Man page Source code |
| per_sample_count_distribution.matrix | Man page Source code |
| plot_adapter_content | Man page Source code |
| plot_cooks_per_sample | Man page Source code |
| plot_cooks_vs_wald | Man page Source code |
| plot_decoy_mapping_rate | Man page Source code |
| plot_dna_contamination_ratio | Man page Source code |
| plot_dovetail_mapping_rate | Man page Source code |
| plot_expression_fraction | Man page Source code |
| plot_failed_mapping_count | Man page Source code |
| plot_frag_length | Man page Source code |
| plot_gc_content | Man page Source code |
| plot_gc_content_hist | Man page Source code |
| plot_gc_mean | Man page Source code |
| plot_gene_mapping_rate | Man page Source code |
| plot_hisat2_mapped_reads | Man page Source code |
| plot_hisat2_mapping_rate | Man page Source code |
| plot_hisat2_stats | Man page Source code |
| plot_hisat2_vs_salmon | Man page Source code |
| plot_inner_dist | Man page Source code |
| plot_intergenic_genic_ratio | Man page Source code |
| plot_junction_saturation | Man page Source code |
| plot_mapping_categories | Man page Source code |
| plot_partitioned_mean_expression | Man page Source code |
| plot_partitioned_pc | Man page Source code |
| plot_pca | Man page Source code |
| plot_phred_mean | Man page Source code |
| plot_phred_per_bp | Man page Source code |
| plot_phred_per_read | Man page Source code |
| plot_r2 | Man page Source code |
| plot_rin | Man page Source code |
| plot_salmon_categories | Man page Source code |
| plot_salmon_mapped_reads | Man page Source code |
| plot_salmon_mapping_pct | Man page Source code |
| plot_salmon_score_filtered_rate | Man page Source code |
| plot_salmon_stats | Man page Source code |
| plot_seq_depth | Man page Source code |
| plot_seq_depth_hist | Man page Source code |
| plot_seq_depth_vs_lib_complexity | Man page Source code |
| plot_seq_duplication | Man page Source code |
| plot_shannon_index | Man page Source code |
| plot_trimmomatic_paired | Man page Source code |
| plot_unique_read_pct | Man page Source code |
| pval_histogram | Man page Source code |
| pval_qqplot | Man page Source code |
| rint | Man page Source code |
| select_replicates | Man page Source code |
| subset_gencode_gtf | Man page Source code |
| subset_txi | Man page Source code |
| volcano_plot | Man page Source code |
| volcano_plot.DESeqResults | Man page Source code |
| volcano_plot.data.frame | Man page Source code |
