Docs Resolwe SDK for Python Index Index _ | A | B | C | D | E | F | G | H | I | L | M | O | P | Q | R | S | U | V _ __init__() (resdk.tables.methylation.MethylationTables method) (resdk.tables.microarray.MATables method) (resdk.tables.ml_ready.MLTables method) (resdk.tables.rna.RNATables method) (resdk.tables.variant.VariantTables method) A add_sample() (resdk.resources.Relation method) add_users() (resdk.resources.Group method) all() (resdk.ResolweQuery method) AnnotationField (class in resdk.resources) AnnotationGroup (class in resdk.resources) AnnotationValue (class in resdk.resources) assign_to_billing_account() (resdk.resources.Collection method) B background (resdk.resources.Sample property) BaseCollection (class in resdk.resources.collection) BaseResolweResource (class in resdk.resources.base) BaseResource (class in resdk.resources.base) beta (resdk.tables.methylation.MethylationTables property) build (resdk.tables.rna.RNATables property) C check_heterogeneous_collections() (resdk.tables.rna.RNATables method) children (resdk.resources.Data property) (resdk.resources.Geneset property) (resdk.resources.Metadata property) clear_cache() (resdk.ResolweQuery method) (resdk.resources.permissions.PermissionsManager method) (resdk.tables.methylation.MethylationTables method) (resdk.tables.microarray.MATables method) (resdk.tables.rna.RNATables method) (resdk.tables.variant.VariantTables method) Collection (class in resdk.resources) copy_from() (resdk.resources.permissions.PermissionsManager method) count() (resdk.ResolweQuery method) create() (resdk.ResolweQuery method) create_background_relation() (resdk.resources.Collection method) create_compare_relation() (resdk.resources.Collection method) create_group_relation() (resdk.resources.Collection method) create_series_relation() (resdk.resources.Collection method) D Data (class in resdk.resources) data (resdk.resources.collection.BaseCollection property) data_types() (resdk.resources.Collection method) (resdk.resources.collection.BaseCollection method) (resdk.resources.Sample method) data_usage() (resdk.Resolwe method) delete() (resdk.ResolweQuery method) (resdk.resources.AnnotationField method) (resdk.resources.AnnotationGroup method) (resdk.resources.AnnotationValue method) (resdk.resources.base.BaseResolweResource method) (resdk.resources.base.BaseResource method) (resdk.resources.Collection method) (resdk.resources.collection.BaseCollection method) (resdk.resources.Data method) (resdk.resources.DescriptorSchema method) (resdk.resources.Geneset method) (resdk.resources.Group method) (resdk.resources.kb.Feature method) (resdk.resources.kb.Mapping method) (resdk.resources.Metadata method) (resdk.resources.PredictionField method) (resdk.resources.PredictionGroup method) (resdk.resources.PredictionPreset method) (resdk.resources.PredictionValue method) (resdk.resources.Process method) (resdk.resources.Relation method) (resdk.resources.Sample method) (resdk.resources.User method) (resdk.resources.Variant method) (resdk.resources.VariantAnnotation method) (resdk.resources.VariantAnnotationTranscript method) (resdk.resources.VariantCall method) (resdk.resources.VariantExperiment method) depth (resdk.tables.variant.VariantTables property) depth_a (resdk.tables.variant.VariantTables property) depth_c (resdk.tables.variant.VariantTables property) depth_g (resdk.tables.variant.VariantTables property) depth_t (resdk.tables.variant.VariantTables property) DescriptorSchema (class in resdk.resources) df (resdk.resources.Metadata property) df_bytes (resdk.resources.Metadata property) download() (resdk.resources.Collection method) (resdk.resources.collection.BaseCollection method) (resdk.resources.Data method) (resdk.resources.Geneset method) (resdk.resources.Metadata method) (resdk.resources.Sample method) download_and_rename() (resdk.resources.Data method) (resdk.resources.Geneset method) (resdk.resources.Metadata method) duplicate() (resdk.resources.Collection method) (resdk.resources.Data method) (resdk.resources.Geneset method) (resdk.resources.Metadata method) (resdk.resources.Sample method) E editors (resdk.resources.permissions.PermissionsManager property) exp (resdk.tables.microarray.MATables property) (resdk.tables.ml_ready.MLTables property) (resdk.tables.rna.RNATables property) F Feature (class in resdk.resources.kb) fetch() (resdk.resources.permissions.PermissionsManager method) fetch_object() (resdk.resources.AnnotationField class method) (resdk.resources.AnnotationGroup class method) (resdk.resources.AnnotationValue class method) (resdk.resources.base.BaseResolweResource class method) (resdk.resources.base.BaseResource class method) (resdk.resources.Collection class method) (resdk.resources.collection.BaseCollection class method) (resdk.resources.Data class method) (resdk.resources.DescriptorSchema class method) (resdk.resources.Geneset class method) (resdk.resources.Group class method) (resdk.resources.kb.Feature class method) (resdk.resources.kb.Mapping class method) (resdk.resources.Metadata class method) (resdk.resources.PredictionField class method) (resdk.resources.PredictionGroup class method) (resdk.resources.PredictionPreset class method) (resdk.resources.PredictionValue class method) (resdk.resources.Process class method) (resdk.resources.Relation class method) (resdk.resources.Sample class method) (resdk.resources.User class method) (resdk.resources.Variant class method) (resdk.resources.VariantAnnotation class method) (resdk.resources.VariantAnnotationTranscript class method) (resdk.resources.VariantCall class method) (resdk.resources.VariantExperiment class method) files() (resdk.resources.Collection method) (resdk.resources.collection.BaseCollection method) (resdk.resources.Data method) (resdk.resources.Geneset method) (resdk.resources.Metadata method) (resdk.resources.Sample method) fill_spaces() (in module resdk.resources.utils) filter (resdk.tables.variant.VariantTables property) filter() (resdk.ResolweQuery method) flatten_field() (in module resdk.resources.utils) G genes (resdk.resources.Geneset property) Geneset (class in resdk.resources) geneset (resdk.tables.variant.VariantTables property) get() (resdk.ResolweQuery method) get_annotation() (resdk.resources.Sample method) get_annotation_fields() (resdk.resources.Collection method) get_annotations() (resdk.resources.Sample method) get_bam() (resdk.resources.Sample method) get_collection_id() (in module resdk.resources.utils) get_cuffquant() (resdk.resources.Sample method) get_data_id() (in module resdk.resources.utils) get_descriptor_schema_id() (in module resdk.resources.utils) get_df() (resdk.resources.Metadata method) get_expression() (resdk.resources.Sample method) get_macs() (resdk.resources.Sample method) get_name() (resdk.resources.User method) get_or_run() (resdk.Resolwe method) get_prediction_fields() (resdk.resources.Collection method) get_predictions() (resdk.resources.Sample method) get_primary_bam() (resdk.resources.Sample method) get_process_id() (in module resdk.resources.utils) get_query_by_resource() (resdk.Resolwe method) get_reads() (resdk.resources.Sample method) get_relation_id() (in module resdk.resources.utils) get_sample_id() (in module resdk.resources.utils) get_user_id() (in module resdk.resources.utils) Group (class in resdk.resources) H has_changes() (resdk.resources.VariantAnnotationTranscript method) I is_background (resdk.resources.Sample property) is_collection() (in module resdk.resources.utils) is_data() (in module resdk.resources.utils) is_descriptor_schema() (in module resdk.resources.utils) is_group() (in module resdk.resources.utils) is_process() (in module resdk.resources.utils) is_relation() (in module resdk.resources.utils) is_sample() (in module resdk.resources.utils) is_user() (in module resdk.resources.utils) iterate() (resdk.ResolweQuery method) iterate_fields() (in module resdk.resources.utils) iterate_schema() (in module resdk.resources.utils) L latest_experiment (resdk.resources.Sample property) log_to_stdout() (resdk.resdk_logger method) login() (resdk.Resolwe method) M Mapping (class in resdk.resources.kb) MATables (class in resdk.tables.microarray) meta (resdk.tables.methylation.MethylationTables property) (resdk.tables.microarray.MATables property) (resdk.tables.rna.RNATables property) (resdk.tables.variant.VariantTables property) Metadata (class in resdk.resources) MethylationTables (class in resdk.tables.methylation) MLTables (class in resdk.tables.ml_ready) module resdk.exceptions resdk.query resdk.resdk_logger resdk.resolwe resdk.resources resdk.resources.kb resdk.resources.utils resdk.tables mval (resdk.tables.methylation.MethylationTables property) O owners (resdk.resources.permissions.PermissionsManager property) P parents (resdk.resources.Data property) (resdk.resources.Geneset property) (resdk.resources.Metadata property) parse_resolwe_datetime() (in module resdk.resources.utils) permissions (resdk.resources.base.BaseResolweResource property) (resdk.resources.Collection property) (resdk.resources.collection.BaseCollection property) (resdk.resources.Data property) (resdk.resources.DescriptorSchema property) (resdk.resources.Geneset property) (resdk.resources.Metadata property) (resdk.resources.Process property) (resdk.resources.Relation property) (resdk.resources.Sample property) PermissionsManager (class in resdk.resources.permissions) PredictionField (class in resdk.resources) PredictionGroup (class in resdk.resources) PredictionPreset (class in resdk.resources) PredictionValue (class in resdk.resources) print_inputs() (resdk.resources.Process method) Process (class in resdk.resources) Q qc (resdk.tables.rna.RNATables property) R rc (resdk.tables.rna.RNATables property) readable_columns (resdk.tables.rna.RNATables property) readable_index (resdk.tables.methylation.MethylationTables property) (resdk.tables.microarray.MATables property) (resdk.tables.rna.RNATables property) (resdk.tables.variant.VariantTables property) Relation (class in resdk.resources) remove_samples() (resdk.resources.Relation method) remove_users() (resdk.resources.Group method) resdk.exceptions module resdk.query module resdk.resdk_logger module resdk.resolwe module resdk.resources module resdk.resources.kb module resdk.resources.utils module resdk.tables module Resolwe (class in resdk) ResolweQuery (class in resdk) restart() (resdk.resources.Data method) (resdk.resources.Geneset method) (resdk.resources.Metadata method) RNATables (class in resdk.tables.rna) run() (resdk.Resolwe method) S Sample (class in resdk.resources) save() (resdk.resources.AnnotationField method) (resdk.resources.AnnotationGroup method) (resdk.resources.AnnotationValue method) (resdk.resources.base.BaseResolweResource method) (resdk.resources.base.BaseResource method) (resdk.resources.Collection method) (resdk.resources.collection.BaseCollection method) (resdk.resources.Data method) (resdk.resources.DescriptorSchema method) (resdk.resources.Geneset method) (resdk.resources.Group method) (resdk.resources.kb.Feature method) (resdk.resources.kb.Mapping method) (resdk.resources.Metadata method) (resdk.resources.PredictionField method) (resdk.resources.PredictionGroup method) (resdk.resources.PredictionPreset method) (resdk.resources.PredictionValue method) (resdk.resources.Process method) (resdk.resources.Relation method) (resdk.resources.Sample method) (resdk.resources.User method) (resdk.resources.Variant method) (resdk.resources.VariantAnnotation method) (resdk.resources.VariantAnnotationTranscript method) (resdk.resources.VariantCall method) (resdk.resources.VariantExperiment method) search() (resdk.ResolweQuery method) set_annotation() (resdk.resources.Sample method) set_annotation_fields() (resdk.resources.Collection method) set_annotations() (resdk.resources.Sample method) set_df() (resdk.resources.Metadata method) set_group() (resdk.resources.permissions.PermissionsManager method) set_index() (resdk.resources.Metadata method) set_operator() (resdk.resources.Geneset method) set_prediction_fields() (resdk.resources.Collection method) set_predictions() (resdk.resources.Sample method) set_public() (resdk.resources.permissions.PermissionsManager method) set_user() (resdk.resources.permissions.PermissionsManager method) source (resdk.resources.Geneset property) species (resdk.resources.Geneset property) start_logging() (resdk.resdk_logger method) stdout() (resdk.resources.Data method) (resdk.resources.Geneset method) (resdk.resources.Metadata method) U unique (resdk.resources.Metadata property) update() (resdk.resources.AnnotationField method) (resdk.resources.AnnotationGroup method) (resdk.resources.AnnotationValue method) (resdk.resources.base.BaseResolweResource method) (resdk.resources.base.BaseResource method) (resdk.resources.Collection method) (resdk.resources.collection.BaseCollection method) (resdk.resources.Data method) (resdk.resources.DescriptorSchema method) (resdk.resources.Geneset method) (resdk.resources.Group method) (resdk.resources.kb.Feature method) (resdk.resources.kb.Mapping method) (resdk.resources.Metadata method) (resdk.resources.PredictionField method) (resdk.resources.PredictionGroup method) (resdk.resources.PredictionPreset method) (resdk.resources.PredictionValue method) (resdk.resources.Process method) (resdk.resources.Relation method) (resdk.resources.Sample method) (resdk.resources.User method) (resdk.resources.Variant method) (resdk.resources.VariantAnnotation method) (resdk.resources.VariantAnnotationTranscript method) (resdk.resources.VariantCall method) (resdk.resources.VariantExperiment method) User (class in resdk.resources) users (resdk.resources.Group property) V validate_df() (resdk.resources.Metadata method) ValidationError (class in resdk.exceptions) Variant (class in resdk.resources) VariantAnnotation (class in resdk.resources) VariantAnnotationTranscript (class in resdk.resources) VariantCall (class in resdk.resources) VariantExperiment (class in resdk.resources) variants (resdk.tables.variant.VariantTables property) variants_by_experiment() (resdk.resources.Sample method) VariantTables (class in resdk.tables.variant) version_check() (resdk.Resolwe method) version_output() (resdk.Resolwe method) viewers (resdk.resources.permissions.PermissionsManager property)