All modules for which code is available
- gain.annotation.annotatable
- gain.annotation.annotate_columns
- gain.annotation.annotate_doc
- gain.annotation.annotate_utils
- gain.annotation.annotate_vcf
- gain.annotation.annotation_config
- gain.annotation.annotation_factory
- gain.annotation.annotation_genomic_context_cli
- gain.annotation.annotation_pipeline
- gain.annotation.annotator_base
- gain.annotation.chrom_mapping_annotator
- gain.annotation.cnv_collection_annotator
- gain.annotation.debug_annotator
- gain.annotation.docker_annotator
- gain.annotation.effect_annotator
- gain.annotation.gene_score_annotator
- gain.annotation.gene_set_annotator
- gain.annotation.liftover_annotator
- gain.annotation.normalize_allele_annotator
- gain.annotation.processing_pipeline
- gain.annotation.record_to_annotatable
- gain.annotation.score_annotator
- gain.annotation.simple_effect_annotator
- gain.annotation.utils
- gain.dask.config
- gain.dask.named_cluster
- gain.effect_annotation.annotation_effects
- gain.effect_annotation.annotation_request
- gain.effect_annotation.annotator
- gain.effect_annotation.cli
- gain.effect_annotation.effect
- gain.effect_annotation.effect_checkers.coding
- gain.effect_annotation.effect_checkers.effect_checker
- gain.effect_annotation.effect_checkers.frame_shift
- gain.effect_annotation.effect_checkers.intron
- gain.effect_annotation.effect_checkers.promoter
- gain.effect_annotation.effect_checkers.protein_change
- gain.effect_annotation.effect_checkers.splice_site
- gain.effect_annotation.effect_checkers.start_loss
- gain.effect_annotation.effect_checkers.stop_loss
- gain.effect_annotation.effect_checkers.utr
- gain.effect_annotation.gene_codes
- gain.effect_annotation.variant
- gain.gene_scores.gene_scores
- gain.gene_scores.implementations.gene_scores_impl
- gain.gene_sets.gene_set
- gain.gene_sets.gene_term
- gain.gene_sets.implementations.gene_sets_impl
- gain.genomic_resources
- gain.genomic_resources.aggregators
- gain.genomic_resources.cached_repository
- gain.genomic_resources.cli
- gain.genomic_resources.draw_score_histograms
- gain.genomic_resources.explore_grr_search
- gain.genomic_resources.fsspec_protocol
- gain.genomic_resources.gene_models.gene_models
- gain.genomic_resources.gene_models.gene_models_factory
- gain.genomic_resources.gene_models.parsers
- gain.genomic_resources.gene_models.serialization
- gain.genomic_resources.gene_models.transcript_models
- gain.genomic_resources.genomic_context
- gain.genomic_resources.genomic_context_base
- gain.genomic_resources.genomic_context_cli
- gain.genomic_resources.genomic_position_table.line
- gain.genomic_resources.genomic_position_table.table
- gain.genomic_resources.genomic_position_table.table_bigwig
- gain.genomic_resources.genomic_position_table.table_inmemory
- gain.genomic_resources.genomic_position_table.table_tabix
- gain.genomic_resources.genomic_position_table.table_vcf
- gain.genomic_resources.genomic_position_table.utils
- gain.genomic_resources.genomic_scores
- gain.genomic_resources.group_repository
- gain.genomic_resources.histogram
- gain.genomic_resources.implementations.annotation_pipeline_impl
- gain.genomic_resources.implementations.gene_models_impl
- gain.genomic_resources.implementations.genomic_scores_impl
- gain.genomic_resources.implementations.liftover_chain_impl
- gain.genomic_resources.implementations.reference_genome_impl
- gain.genomic_resources.liftover_chain
- gain.genomic_resources.reference_genome
- gain.genomic_resources.repository
- gain.genomic_resources.repository_factory
- gain.genomic_resources.resource_implementation
- gain.genomic_resources.statistics.base_statistic
- gain.genomic_resources.statistics.min_max
- gain.genomic_resources.testing
- gain.genomic_resources.utils
- gain.genomic_resources.variant_utils
- gain.task_graph.base_executor
- gain.task_graph.cache
- gain.task_graph.cli_tools
- gain.task_graph.dask_executor
- gain.task_graph.demo_graphs_cli
- gain.task_graph.executor
- gain.task_graph.graph
- gain.task_graph.logging
- gain.task_graph.process_pool_executor
- gain.task_graph.sequential_executor
- gain.testing.acgt_import
- gain.testing.alla_import
- gain.testing.foobar_import
- gain.testing.t4c8_import
- gain.utils.cnv_utils
- gain.utils.dae_utils
- gain.utils.debug_closing
- gain.utils.dict_utils
- gain.utils.fs_utils
- gain.utils.helpers
- gain.utils.processing_pipeline
- gain.utils.regions
- gain.utils.sql_utils
- gain.utils.stats_collection
- gain.utils.variant_utils
- gain.utils.verbosity_configuration