API for Paradigm4/insight
SciDB REVEAL/Genomics API

Global functions
Choices Man page
DATASET_ARRAY Source code
DataLoader Man page
DataLoaderVariantFormatA Man page
DataLoaderVariantGemini Man page
DataReaderVariantFormatA Man page
FeaturesetChoices Man page
FilterChoices Man page
PERMISSIONS_ARRAY Source code
PipelineChoices Man page
add_user_to_data_loaders Man page Source code
aggr_proj_study_by_pheno Man page Source code
api_register_biosamples Man page Source code
api_register_definitions Man page Source code
api_register_featuresets_experimentsets_measurementsets Man page Source code
api_register_individuals Man page Source code
api_register_ontology_from_definition_sheet Man page Source code
api_register_project_datasets Source code
apply_definition_constraints Source code
as.scidb_int64_cols Man page Source code
autoconvert_char Man page Source code
build_reference_gene_set Man page Source code
calculate_statistics_across_measurementsets Man page Source code
calculate_statistics_rnaquantification Man page Source code
calculate_statistics_variant Man page Source code
check_args_get Source code
check_args_search Source code
check_entity_exists_at_id Source code
combine_duplicate_column Source code
convertToExpressionSet Source code
convert_attr_double_to_int64 Source code
convert_factors_to_char Source code
convert_to_id_ranges Source code
count_unique_calls Source code
createDataLoader Source code
createDataReader Source code
cross_join_select_by_two_dims Source code
custom_scan Man page Source code
dao_search_expression Man page Source code
delete_dataset Source code
delete_dataset_internal Source code
delete_entity Source code
delete_info_fields Source code
delete_project Source code
df_rename_column Source code
drop_na_columns Source code
entity_to_excel_sheet_converter Source code
feature_matching_level1 Man page Source code
filter_on_dataset_id_and_version Man page Source code
find_matches_and_return_indices Man page Source code
find_matches_with_db Source code
find_matching_featureset Man page Source code
find_namespace Source code
form_selector_query_1d_array Source code
form_selector_query_secure_array Source code
formulate_base_selection_query Source code
formulate_list_expression_set Source code
formulate_versioned_selection_query Man page Source code
full_arrayname Man page Source code
get_base_idname Source code
get_biosamples Source code
get_biosamples_from_cache Source code
get_dataset_max_version Source code
get_dataset_subelements Source code
get_dataset_version_lookup Source code
get_datasets Source code
get_definition_from_cache Source code
get_definitions Source code
get_delete_by_entity Source code
get_entity Source code
get_entity_class Source code
get_entity_count Source code
get_entity_count_old Source code
get_entity_data_class Source code
get_entity_from_cache Man page Source code
get_entity_info Source code
get_entity_infoArrayExists Man page Source code
get_entity_names Source code
get_experiments Man page Source code
get_experimentset Source code
get_feature_synonym Source code
get_feature_synonym_from_cache Source code
get_features Source code
get_featuresets Source code
get_gene_symbol Source code
get_gene_symbol_from_cache Source code
get_genelist Source code
get_idname Source code
get_individuals Man page Source code
get_infoArray Source code
get_int64fields Source code
get_logged_in_user Man page Source code
get_mandatory_fields_for_register_entity Man page Source code
get_max_id Source code
get_measurements Man page Source code
get_measurementsets Source code
get_namespace Source code
get_ontology Source code
get_ontology_from_cache Source code
get_projects Source code
get_referenceset Source code
get_search_by_entity Source code
get_variant_key Source code
get_variant_key_from_cache Source code
get_versioned_secure_metadata_entity Source code
gh_connect Source code
gh_connect2 Source code
grant_initial_access Man page Source code
handle_duplicate_name_source Source code
increment_dataset_version Source code
init_db Man page Source code
init_permissions_array Source code
is_entity_cached Man page Source code
is_entity_secured Source code
is_entity_versioned Source code
join_info Man page Source code
join_info_unpivot Man page Source code
join_ontology_terms Source code
latest_version Source code
list_datasets Man page Source code
list_name_source_by_hierarchy Source code
list_ncol_in_aux_column Man page Source code
list_nrow_in_aux_column Man page Source code
list_users Man page Source code
load_helper_assign_ontology_ids Source code
load_helper_column_rename Man page Source code
load_helper_do_entity_specific_work Man page Source code
load_helper_handle_duplicates Man page Source code
load_helper_prepare_dataframe Man page Source code
load_helper_replace_local_ids Man page Source code
mandatory_fields Man page Source code
match_features Man page Source code
merge_aux_info_from_df Man page Source code
merge_aux_info_from_file Man page Source code
merge_gene_annotation_and_location Source code
myExcelLoader Man page Source code
myExcelReader Man page Source code
names_to_numbered_vec_by_uniqueness Man page Source code
onAttach Source code
populate_measurements Man page Source code
prep_df_fields Man page Source code
pretty_print Man page Source code
print_dataset_subelements Source code
register_biosample Source code
register_copynumber_matrix_file Source code
register_copynumber_seg Source code
register_copynumberset Source code
register_dataset Source code
register_definitions Source code
register_entities_excel Man page Source code
register_entities_workbook Man page Source code
register_experimentset Source code
register_expression_dataframe Man page Source code
register_expression_matrix Man page Source code
register_expression_matrix_client Man page Source code
register_feature Source code
register_feature_synonym Source code
register_featureset Source code
register_fusion_data Source code
register_gene_symbol Man page Source code
register_genelist Man page Source code
register_genelist_gene Man page Source code
register_individual Source code
register_info Source code
register_mandatory_and_flex_fields Man page Source code
register_measurement Source code
register_measurementset Source code
register_ontology_term Source code
register_project Source code
register_referenceset Source code
register_tuple Source code
register_tuple_return_id Source code
register_variant Source code
register_variant_key Source code
register_versioned_secure_metadata_entity Source code
remove_duplicates Source code
remove_old_versions_for_entity Man page Source code
remove_versions Man page Source code
rename_column Source code
report_missing_mandatory_fields Source code
revealgenomics Man page
revealgenomics-package Man page
run_tests_dataframe Man page Source code
scidb_array_count Source code
scidb_array_head Source code
scidb_attribute_rename Source code
scidb_exists_array Source code
search_biosamples Source code
search_copynumber_mat Source code
search_copynumber_mats_scidb Source code
search_copynumber_seg Source code
search_copynumber_segs_scidb Source code
search_copynumbersets Source code
search_datasets Source code
search_definitions Source code
search_entity Source code
search_experimentsets Source code
search_expression Man page Source code
search_feature_by_synonym Man page Source code
search_features Source code
search_fusion Man page Source code
search_fusions_scidb Source code
search_gene_symbols Source code
search_genelist_gene Source code
search_individuals Man page Source code
search_measurements Source code
search_measurementsets Source code
search_ontology Source code
search_rnaquantification Man page Source code
search_rnaquantification_scidb Source code
search_variants Man page Source code
search_variants_scidb Man page Source code
search_versioned_secure_metadata_entity Man page Source code
select_from_1d_entity Man page Source code
set_permissions Man page Source code
show_dataset_permissions Man page Source code
show_permissions_inner Source code
show_user_permissions Man page Source code
split_synonyms_by_pipe Source code
strip_namespace Source code
template_helper_convert_names Man page Source code
template_helper_enforce_columns_defined Man page Source code
template_helper_enforce_mandatory_columns_present Man page Source code
template_helper_extract_definitions Man page Source code
template_helper_extract_pipeline_meta_info Man page Source code
template_helper_extract_record_related_rows Man page Source code
template_helper_suffix_by_entity Man page Source code
template_linker Man page
test_dataframe_formatting Source code
test_mandatory_fields Source code
test_register_biosample Source code
test_register_copnyumber_matrix_file Source code
test_register_copynumber_seg Source code
test_register_dataset Source code
test_register_definition Source code
test_register_experimentset Source code
test_register_expression_dataframe Source code
test_register_expression_matrix Source code
test_register_feature Source code
test_register_feature_synonym Source code
test_register_featureset Source code
test_register_fusion_data Source code
test_register_gene_symbol Source code
test_register_genelist Source code
test_register_genelist_gene Source code
test_register_individual Source code
test_register_measurementset Source code
test_register_ontology Source code
test_register_project Source code
test_register_referenceset Source code
test_register_variant Source code
test_register_variant_key Source code
test_register_versioned_secure_metadata_entity Source code
test_return_carriage_in_df Source code
test_unique_fields Source code
unique_fields Source code
unpivot Source code
unpivot_key_value_pairs Source code
update_biosample_cache Source code
update_definition_cache Source code
update_entity Source code
update_entity_cache Source code
update_feature_synonym_cache Source code
update_gene_symbol_cache Source code
update_mandatory_and_info_fields Source code
update_ontology_cache Source code
update_tuple Source code
update_variant_key_cache Source code
use_ghEnv_if_null Source code
yaml_to_attr_string Source code
yaml_to_dim_str Source code
Paradigm4/insight documentation built on Oct. 4, 2018, 8 a.m.