[console_scripts]
annotate_columns = gain.annotation.annotate_columns:cli
annotate_doc = gain.annotation.annotate_doc:cli
annotate_tabular = gain.annotation.annotate_tabular:cli
annotate_variant_effects = gain.effect_annotation.cli:cli_columns
annotate_variant_effects_vcf = gain.effect_annotation.cli:cli_vcf
annotate_vcf = gain.annotation.annotate_vcf:cli
demo_graphs_cli = gain.task_graph.demo_graphs_cli:main
draw_score_histograms = gain.genomic_resources.draw_score_histograms:main
grr_browse = gain.genomic_resources.cli:cli_browse
grr_cache_repo = gain.genomic_resources.cli_cache_repo:cli_cache_repo
grr_manage = gain.genomic_resources.cli:cli_manage
prepare_tabular = gain.annotation.prepare_tabular:cli
to_gpf_gene_models_format = gain.genomic_resources.gene_models.to_gpf_gene_models_format:main

[gain.annotation.annotators]
allele_score = gain.annotation.score_annotator:build_allele_score_annotator
allele_score_annotator = gain.annotation.score_annotator:build_allele_score_annotator
basic_liftover_annotator = gain.annotation.liftover_annotator:build_liftover_annotator
bcf_liftover_annotator = gain.annotation.liftover_annotator:build_liftover_annotator
chrom_mapping = gain.annotation.chrom_mapping_annotator:build_chrom_mapping_annotator
cnv_collection = gain.annotation.cnv_collection_annotator:build_cnv_collection_annotator
cnv_collection_annotator = gain.annotation.cnv_collection_annotator:build_cnv_collection_annotator
debug_annotator = gain.annotation.debug_annotator:build_annotator
effect_annotator = gain.annotation.effect_annotator:build_effect_annotator
gene_score_annotator = gain.annotation.gene_score_annotator:build_gene_score_annotator
gene_set_annotator = gain.annotation.gene_set_annotator:build_gene_set_annotator
liftover_annotator = gain.annotation.liftover_annotator:build_liftover_annotator
normalize_allele_annotator = gain.annotation.normalize_allele_annotator:build_normalize_allele_annotator
np_score = gain.annotation.score_annotator:build_np_score_annotator
np_score_annotator = gain.annotation.score_annotator:build_np_score_annotator
position_score = gain.annotation.score_annotator:build_position_score_annotator
position_score_annotator = gain.annotation.score_annotator:build_position_score_annotator
simple_effect_annotator = gain.annotation.simple_effect_annotator:build_simple_effect_annotator

[gain.genomic_resources.implementations]
allele_score = gain.genomic_resources.implementations.genomic_scores_impl:GenomicScoreImplementation
annotation_pipeline = gain.genomic_resources.implementations.annotation_pipeline_impl:AnnotationPipelineImplementation
cnv_collection = gain.genomic_resources.implementations.genomic_scores_impl:CnvCollectionImplementation
gene_models = gain.genomic_resources.implementations.gene_models_impl:GeneModelsImpl
gene_score = gain.gene_scores.implementations.gene_scores_impl:GeneScoreImplementation
gene_set = gain.gene_sets.implementations.gene_sets_impl:GeneSetCollectionImpl
gene_set_collection = gain.gene_sets.implementations.gene_sets_impl:GeneSetCollectionImpl
genome = gain.genomic_resources.implementations.reference_genome_impl:ReferenceGenomeImplementation
liftover_chain = gain.genomic_resources.implementations.liftover_chain_impl:LiftoverChainImplementation
np_score = gain.genomic_resources.implementations.genomic_scores_impl:GenomicScoreImplementation
position_score = gain.genomic_resources.implementations.genomic_scores_impl:GenomicScoreImplementation

[gain.genomic_resources.plugins]
cli_annotation_context = gain.annotation.annotation_genomic_context_cli:CLIAnnotationContextProvider
cli_genomic_context = gain.genomic_resources.genomic_context_cli:CLIGenomicContextProvider
default_grr = gain.genomic_resources.genomic_context:DefaultRepositoryContextProvider
