Man pages for annaquaglieri16/samplepower
Compute sensitivity and false positive rates for a variant call set with repsect to a truth dataset.
| extract_fields | Extract specific fields from 'variant_files' that will be... |
| flag_variants | Flag and annotate variants using external databases and panel... |
| get_genes_logcpm | Extract logCPM and raw counts for selected genes and samples |
| parse_gatk_coverage | Parse and coverage and VAF from every location in the truth... |
| parse_pon | Parse panel of normal variants to standardise output across... |
| parse_vcf_output | Parse a VCF input to return a data frame with standardised... |
| parse_vep_csq | Parse the CSQ field added to the 'VCF' file by the Variant... |
| reassign_names | Rename columns of 'featureCounts' counts output |
| sens_compute | Computes sensitivity with respect to a truth set |
| sensitivity_by_thresholds | This function is a wrapper for 'sens_compute()' and computes... |
| variants_power | Compute sensitivity and specificity for the a set of variants... |
