API for markgene/yamat
Yet Another Methylation Array Toolkit
| Global functions | |
|---|---|
| .expected_intensity | Source code |
| .has_idat | Source code |
| .plot_control_probes_green | Source code |
| .plot_control_probes_norm | Source code |
| .plot_control_probes_red | Source code |
| .plot_sample_independent_control_probes | Source code |
| .sample_dependent | Source code |
| add_extra_columns | Source code |
| assess_qc_metrics | Source code |
| control_probe_intensities | Man page Source code |
| copy_number | Man page Source code |
| create_idat_table | Man page Source code |
| dye_bias_correction | Man page |
| get_bisulfite_converstion_type_1_green_qc | Man page Source code |
| get_bisulfite_converstion_type_1_red_qc | Man page Source code |
| get_bisulfite_converstion_type_2_qc | Man page Source code |
| get_control_probe_qc_metrics | Man page Source code |
| get_detection_p_value_qc_metrics | Man page Source code |
| get_extension_green_qc | Man page Source code |
| get_extension_red_qc | Man page Source code |
| get_gender | Man page Source code |
| get_gse | Man page Source code |
| get_hybridization_green_qc | Man page Source code |
| get_idat_file_list | Man page Source code |
| get_meth_unmeth_median_noob | Source code |
| get_meth_unmeth_median_raw | Source code |
| get_nonpolymorphic_green_qc | Man page Source code |
| get_nonpolymorphic_red_qc | Man page Source code |
| get_qc_metrics | Man page Source code |
| get_restoration_qc | Man page Source code |
| get_sentrix_id | Man page Source code |
| get_sentrix_position | Man page Source code |
| get_specificity_type_1_green_qc | Man page Source code |
| get_specificity_type_1_red_qc | Man page Source code |
| get_specificity_type_2_qc | Man page Source code |
| get_staining_green_qc | Man page Source code |
| get_staining_red_qc | Man page Source code |
| get_target_removal_qc | Man page Source code |
| ggsci_pal_d | Man page Source code |
| init_report | Man page Source code |
| is_annotated | Man page Source code |
| normalize | Man page Source code |
| normalize.dkfz | Man page |
| normalize.funnorm | Source code |
| normalize.illumina | Source code |
| normalize.methylcnv | Man page |
| normalize.noob | Source code |
| normalize.quantile | Source code |
| normalize.raw | Source code |
| normalize.swan | Source code |
| normalize.yamat | Man page Source code |
| plot_beta_value_histogram_fill_by_sample | Man page |
| plot_control_probes | Man page Source code |
| qc | Man page Source code |
| qc_control_probes | Man page Source code |
| qc_pipe | Man page Source code |
| read_metharray_exp | Man page Source code |
| remove_batch_effect | Man page Source code |
| remove_batch_effect_beta | Man page |
| remove_batch_effect_cn | Man page |
| remove_batch_effect_mum | Man page Source code |
| set_annotation_epic_v2 | Man page Source code |
| write_qc_metrics_excel | Man page Source code |
