Man pages for sigven/OncoVarReporter
Generation of precision oncology reports for cancer genomes

add_pfam_domain_linksFunction that adds PFAM name descriptions to PFAM identifiers
add_read_supportFunction that adds read support (depth, allelic fraction) for...
add_swissprot_feature_descriptionsFunction that adds SwissProt feature descriptions based on...
annotate_variant_linkFunction that adds HTML links to different genetic variant...
assign_poplevel_frequencyFunction that assigns a category ('Rare','Common' etc) to...
assign_poplevel_frequency_classFunction that assigns a category ('Rare','Common' etc) to...
cnv_segment_annotationFunction that annotates CNV segment files (FACETS)
filter_db_germline_variantsFunction that filters a data frame with variants according to...
generate_biomarker_tsvFunction that generates a data frame with basic biomarker...
generate_pcg_reportFunction that generate cancer genome reports for a project...
generate_report_dataFunction that generates multiple reports
generate_tier_tsvFunction that generates dense and tiered annotated variant...
get_callsFunction that reads a VCF from OncoVarExplorer pipeline
get_clinical_associations_civic_cbmdbFunction that appends clinical annotations for somatic cancer...
helloHello, World!
plot_call_statisticsFunction that plots call numbers
postprocess_vranges_infoA function that converts the INFO tags in a VRanges object...
signature_contributions_single_sampleFunction that retrieves relative estimates of known somatic...
tier_to_mafFunction that transforms a tier-structured variant data frame...
sigven/OncoVarReporter documentation built on May 26, 2017, 9:08 a.m.