Man pages for alex-kalinka-cruk/fgcQC
QC metric calculations for CRISPR screen data produced at the FGC
| add_bagel_PRROC_gene_sets | add_bagel_PRROC_gene_sets |
| add_bagel_ROC_gene_sets | add_bagel_ROC_gene_sets |
| add_ROC | add_ROC |
| assemble_counts_QC | assemble_counts_QC |
| assemble_logfc_QC | assemble_logfc_QC |
| bagel.fgc_0008 | bagel.fgc_0008 |
| calc_AUC | calc_AUC |
| calc_dcorr_GC_content_counts | calc_dcorr_GC_content_counts |
| calc_dcorr_GC_content_logfc | calc_dcorr_GC_content_logfc |
| calc_dispersion_adj_gRNA | calc_dispersion_adj_gRNA |
| calc_GC_percent_library | calc_GC_percent_library |
| calc_GICC_gene_sets | calc_GICC_gene_sets |
| calc_gini_coefficient_counts | calc_gini_coefficient_counts |
| calc_inefficient_gRNA_count_ratios | calc_inefficient_gRNA_count_ratios |
| calc_inefficient_gRNA_logfc | calc_inefficient_gRNA_logfc |
| calc_log2_fold_change_genes | calc_log2_fold_change_genes |
| calc_log2_fold_change_gRNAs | calc_log2_fold_change_gRNAs |
| calc_low_zero_count_plasmid_gRNAs | calc_low_zero_count_plasmid_gRNAs |
| calc_mahalanobis_dist_plasmid | calc_mahalanobis_dist_plasmid |
| calc_median_normalization_size_factors | calc_median_normalization_size_factors |
| calc_NNMD_gene_sets | calc_NNMD_gene_sets |
| calc_NNMD_robust_gene_sets | calc_NNMD_robust_gene_sets |
| calc_percent_matching_gRNAs | calc_percent_matching_gRNAs |
| calc_replicate_logfc_corr | calc_replicate_logfc_corr |
| cleanr.lfc.fgc_0008 | cleanr.lfc.fgc_0008 |
| config_qc_metrics | config_qc_metrics |
| counts.fgc_0008 | counts.fgc_0008 |
| crispr_gene_sets | crispr_gene_sets |
| extract_analysis_comparisons | extract_analysis_comparisons |
| extract_b2f_json | extract_b2f_json |
| extract_proximal_4bases_PAM | extract_proximal_4bases_PAM |
| fgcQC-package | fgcQC: QC metric calculations for CRISPR screen data produced... |
| get_PRROC | get_PRROC |
| GICC | GICC |
| mask_mocked_columns | mask_mocked_columns |
| merge_bcl2fastq_config_qc | merge_bcl2fastq_config_qc |
| mock_bcl2fastq_json | mock_bcl2fastq_json |
| mock_bcl2fastq_template | mock_bcl2fastq_template |
| mock_config_qc_section | mock_config_qc_section |
| mock_library_cleanr_tsv | mock_library_cleanr_tsv |
| mock_missing_FGC_data | mock_missing_FGC_data |
| NNMD | NNMD |
| NNMD_robust | NNMD_robust |
| normalize_library_depth_median_ratio | normalize_library_depth_median_ratio |
| normalize_library_depth_relative | normalize_library_depth_relative |
| print.fgcQC | print.fgcQC |
| QC_fgc_crispr_data | QC_fgc_crispr_data |
| read_analysis_config_json | read_analysis_config_json |
| summarise_samples_bcl2fastq | summarise_samples_bcl2fastq |
