API for alex-kalinka-cruk/fgcQC
QC metric calculations for CRISPR screen data produced at the FGC
| Global functions | |
|---|---|
| .add_masks_mocked_columns | Source code |
| .check_comparison | Source code |
| .check_qc_inputs | Source code |
| .file_exists | Source code |
| .geom_mean | Source code |
| .get_auc | Source code |
| .icc_ci | Source code |
| .make_comparison_unit | Source code |
| .make_dummy_bagel | Source code |
| .median | Source code |
| .prep_bcl2fastq | Source code |
| .print_progress | Source code |
| .read_bcl2fastq | Source code |
| .run_gicc | Source code |
| .sanity_check_b2f_out | Source code |
| GICC | Man page Source code |
| NNMD | Man page Source code |
| NNMD_robust | Man page Source code |
| QC_fgc_crispr_data | Man page Source code |
| add_ROC | Man page Source code |
| add_bagel_PRROC_gene_sets | Man page Source code |
| add_bagel_ROC_gene_sets | Man page Source code |
| assemble_counts_QC | Man page Source code |
| assemble_logfc_QC | Man page Source code |
| bagel.fgc_0008 | Man page |
| calc_AUC | Man page Source code |
| calc_GC_percent_library | Man page Source code |
| calc_GICC_gene_sets | Man page Source code |
| calc_NNMD_gene_sets | Man page Source code |
| calc_NNMD_robust_gene_sets | Man page Source code |
| calc_dcorr_GC_content_counts | Man page Source code |
| calc_dcorr_GC_content_logfc | Man page Source code |
| calc_dispersion_adj_gRNA | Man page Source code |
| calc_gini_coefficient_counts | Man page Source code |
| calc_inefficient_gRNA_count_ratios | Man page Source code |
| calc_inefficient_gRNA_logfc | Man page Source code |
| calc_log2_fold_change_gRNAs | Man page Source code |
| calc_log2_fold_change_genes | Man page Source code |
| calc_low_zero_count_plasmid_gRNAs | Man page Source code |
| calc_mahalanobis_dist_plasmid | Man page Source code |
| calc_median_normalization_size_factors | Man page Source code |
| calc_percent_matching_gRNAs | Man page Source code |
| calc_replicate_logfc_corr | Man page Source code |
| cleanr.lfc.fgc_0008 | Man page |
| config_qc_metrics | Man page |
| counts.fgc_0008 | Man page |
| crispr_gene_sets | Man page |
| extract_analysis_comparisons | Man page Source code |
| extract_b2f_json | Man page Source code |
| extract_proximal_4bases_PAM | Man page Source code |
| fgcQC | Man page |
| fgcQC-package | Man page |
| get_PRROC | Man page Source code |
| mask_mocked_columns | Man page |
| merge_bcl2fastq_config_qc | Man page Source code |
| mock_bcl2fastq_json | Man page Source code |
| mock_bcl2fastq_template | Man page |
| mock_config_qc_section | Man page Source code |
| mock_library_cleanr_tsv | Man page Source code |
| mock_missing_FGC_data | Man page Source code |
| normalize_library_depth_median_ratio | Man page Source code |
| normalize_library_depth_relative | Man page Source code |
| print.fgcQC | Man page Source code |
| read_analysis_config_json | Man page Source code |
| summarise_samples_bcl2fastq | Man page Source code |
