Welcome to querynator’s documentation!
- querynator
- Installation
- Usage
- API Reference
query_api_civic()
query_api_cgi()
create_report()
Cancer()
EnumType
filter_vcf_by_vep()
get_unique_querynator_dir()
make_enum()
write_vcf()
add_cgi_metadata()
delete_job_cgi()
download_cgi()
hg_assembly()
query_cgi()
status_done()
submit_query_cgi()
access_civic_by_coordinate()
add_civic_metadata()
append_to_dict()
check_vcf_input()
concat_dicts()
create_civic_results()
get_assertion_information_from_variant()
get_coordinates_from_vcf()
get_evidence_information_from_variant()
get_gene_information_from_variant()
get_molecular_profile_information_from_variant()
get_positional_information_from_coord_obj()
get_querynator_id()
get_variant_information_from_variant()
query_civic()
smoothen_dict()
sort_coord_list()
sort_rules()
vcf_file()
add_variant_name_report()
assign_comb_evidence_labels()
check_if_nan()
create_barplot()
create_evidence_table()
create_html_link()
create_link_col()
create_report_htmls()
create_therapy_table()
create_tier_table()
create_upsetplots()
encode_upsetplot()
get_KB_count()
get_disease_names_CIViC()
get_evidence_description()
get_reference_build()
get_sources()
get_therapy_information_CGI()
get_therapy_names()
remove_dups()
retrieve_info_from_row()
save_plot()
split_cols()
write_individual_report()
write_overall_report()
combine_cgi()
extract_coords()
get_all_alterations()
get_highest_evidence()
link_biomarkers()
merge_alterations_vep()
read_filtered_vcf()
read_modify_alterations()
remove_prefix()
subset_alterations()
combine_civic()
merge_civic_vep()
read_civic_results()
read_filtered_vcf()
combine_cgi_civic()
merge_civic_cgi()
add_tiers_and_scores_to_df()
check_nan_in_pair()
extract_num()
generate_allele_freq_score()
generate_consequence_score()
generate_evidence_score()
generate_pathogenicity_score_score()
get_allele_freq_tiering()
get_cgi_consequence_score()
get_civic_consequence_score()
get_consequence_score()
get_largest_af()
get_largest_path_score()
get_min()
scoring_variants()
subset_variants_into_tiers()
- Contributing
- Changelog
- 0.4.1 - Stormy Saturn (2023-06-13)
- 0.4.0 - Stormy Saturn (2023-05-31)
- 0.3.3 - Iron Mercury (2023-05-05)
- 0.3.2 - Iron Mercury (2023-05-05)
- 0.3.1 - Iron Mercury (2023-05-05)
- 0.3.0 - Iron Mercury (2023-05-04)
- 0.2.2 - Sour Venus (2023-03-16)
- 0.2.1 - Sour Venus (2023-02-16)
- 0.2.0 - Sour Venus (2023-02-07)
- 0.1.3 - Diamond Neptune (2022-11-21)
- 0.1.2 - Diamond Neptune (2022-11-18)
- 0.1.1 - Methane Titan (2022-11-18)
- 0.1.0 - initial release (2022-11-18)