Index

A

add_note() (nlpmed_engine.data_structures.patient.Patient method)

add_sentence() (nlpmed_engine.components.duplicate_checker.DuplicateChecker method)

B

BasePipeline (class in nlpmed_engine.pipelines.base_pipeline)

batch_size (nlpmed_engine.api.models.SentenceSegmenterModel attribute) BatchPipeline (class in nlpmed_engine.pipelines.batch_pipeline)

C

clear_lsh() (nlpmed_engine.components.duplicate_checker.DuplicateChecker method) component (nlpmed_engine.pipelines.base_pipeline.ComponentDict attribute)

ComponentDict (class in nlpmed_engine.pipelines.base_pipeline) ComponentStatusModel (class in nlpmed_engine.api.models) ConfigModel (class in nlpmed_engine.api.models)

D

debug (nlpmed_engine.api.models.ConfigModel attribute) delimiter (nlpmed_engine.api.models.SectionSplitterModel attribute) device (nlpmed_engine.api.models.MLInferenceModel attribute) duplicate_checker (nlpmed_engine.api.models.ConfigModel attribute)

duplicate_indices (nlpmed_engine.api.models.SectionModel attribute) (nlpmed_engine.data_structures.section.Section attribute) DuplicateChecker (class in nlpmed_engine.components.duplicate_checker) DuplicateCheckerModel (class in nlpmed_engine.api.models)

E

encoding_fixer (nlpmed_engine.api.models.ConfigModel attribute) EncodingFixer (class in nlpmed_engine.components.encoding_fixer) EncodingFixerModel (class in nlpmed_engine.api.models) end_index (nlpmed_engine.api.models.SectionModel attribute) (nlpmed_engine.api.models.SentenceModel attribute) (nlpmed_engine.data_structures.section.Section attribute) (nlpmed_engine.data_structures.sentence.Sentence attribute)

expand_section_sentences() (nlpmed_engine.components.sentence_expander.SentenceExpander method) expanded_indices (nlpmed_engine.api.models.SectionModel attribute) (nlpmed_engine.data_structures.section.Section attribute)

F

fallback (nlpmed_engine.api.models.SectionFilterModel attribute)

from_json() (nlpmed_engine.data_structures.patient.Patient static method)

G

get_batch_pipeline() (in module nlpmed_engine.api.routes) get_effective_param() (in module nlpmed_engine.utils.utils)

get_minhash() (nlpmed_engine.components.duplicate_checker.DuplicateChecker method) get_single_pipeline() (in module nlpmed_engine.api.routes)

H

health_check() (in module nlpmed_engine.api.main)

I

important_indices (nlpmed_engine.api.models.SectionModel attribute) (nlpmed_engine.data_structures.section.Section attribute) initializer() (nlpmed_engine.pipelines.base_pipeline.BasePipeline method) is_duplicate (nlpmed_engine.api.models.SentenceModel attribute) (nlpmed_engine.data_structures.sentence.Sentence attribute) is_duplicate() (nlpmed_engine.components.duplicate_checker.DuplicateChecker method)

is_expanded (nlpmed_engine.api.models.SentenceModel attribute) (nlpmed_engine.data_structures.sentence.Sentence attribute) is_important (nlpmed_engine.api.models.SectionModel attribute) (nlpmed_engine.api.models.SentenceModel attribute) (nlpmed_engine.data_structures.section.Section attribute) (nlpmed_engine.data_structures.sentence.Sentence attribute)

J

Joiner (class in nlpmed_engine.components.joiner)

joiner (nlpmed_engine.api.models.ConfigModel attribute) JoinerModel (class in nlpmed_engine.api.models)

L

length_threshold (nlpmed_engine.api.models.DuplicateCheckerModel attribute) (nlpmed_engine.api.models.SentenceExpanderModel attribute)

M

map_internal_to_pydantic_note_model() (in module nlpmed_engine.api.mappers) map_internal_to_pydantic_patient_model() (in module nlpmed_engine.api.mappers) map_internal_to_pydantic_section_model() (in module nlpmed_engine.api.mappers) map_internal_to_pydantic_sentence_model() (in module nlpmed_engine.api.mappers) map_pydantic_to_internal_note() (in module nlpmed_engine.api.mappers) map_pydantic_to_internal_patient() (in module nlpmed_engine.api.mappers) map_pydantic_to_internal_section() (in module nlpmed_engine.api.mappers) map_pydantic_to_internal_sentence() (in module nlpmed_engine.api.mappers) mask_char (nlpmed_engine.api.models.WordMaskerModel attribute) ml_inference (nlpmed_engine.api.models.ConfigModel attribute) ml_model_path (nlpmed_engine.api.models.MLInferenceModel attribute) ml_tokenizer_path (nlpmed_engine.api.models.MLInferenceModel attribute) MLInference (class in nlpmed_engine.components.ml_inference) MLInferenceModel (class in nlpmed_engine.api.models) model_config (nlpmed_engine.api.models.ComponentStatusModel attribute) (nlpmed_engine.api.models.ConfigModel attribute) (nlpmed_engine.api.models.DuplicateCheckerModel attribute) (nlpmed_engine.api.models.EncodingFixerModel attribute) (nlpmed_engine.api.models.JoinerModel attribute) (nlpmed_engine.api.models.MLInferenceModel attribute) (nlpmed_engine.api.models.NoteFilterModel attribute) (nlpmed_engine.api.models.NoteModel attribute) (nlpmed_engine.api.models.PatientModel attribute) (nlpmed_engine.api.models.PatternReplacerModel attribute) (nlpmed_engine.api.models.SectionFilterModel attribute) (nlpmed_engine.api.models.SectionModel attribute) (nlpmed_engine.api.models.SectionSplitterModel attribute) (nlpmed_engine.api.models.SentenceExpanderModel attribute) (nlpmed_engine.api.models.SentenceFilterModel attribute) (nlpmed_engine.api.models.SentenceModel attribute) (nlpmed_engine.api.models.SentenceSegmenterModel attribute) (nlpmed_engine.api.models.StringInputModel attribute) (nlpmed_engine.api.models.TextProcessingResponseModel attribute) (nlpmed_engine.api.models.WordMaskerModel attribute)

module nlpmed_engine nlpmed_engine.about nlpmed_engine.api nlpmed_engine.api.main nlpmed_engine.api.mappers nlpmed_engine.api.models nlpmed_engine.api.routes nlpmed_engine.components nlpmed_engine.components.duplicate_checker nlpmed_engine.components.encoding_fixer nlpmed_engine.components.joiner nlpmed_engine.components.ml_inference nlpmed_engine.components.note_filter nlpmed_engine.components.pattern_replacer nlpmed_engine.components.section_filter nlpmed_engine.components.section_splitter nlpmed_engine.components.sentence_expander nlpmed_engine.components.sentence_filter nlpmed_engine.components.sentence_segmenter nlpmed_engine.components.word_masker nlpmed_engine.data_structures nlpmed_engine.data_structures.note nlpmed_engine.data_structures.patient nlpmed_engine.data_structures.section nlpmed_engine.data_structures.sentence nlpmed_engine.pipelines nlpmed_engine.pipelines.base_pipeline nlpmed_engine.pipelines.batch_pipeline nlpmed_engine.pipelines.single_pipeline nlpmed_engine.utils nlpmed_engine.utils.utils

N

nlp_model_name (nlpmed_engine.api.models.SentenceSegmenterModel attribute) nlpmed_engine module nlpmed_engine.about module nlpmed_engine.api module nlpmed_engine.api.main module nlpmed_engine.api.mappers module nlpmed_engine.api.models module nlpmed_engine.api.routes module nlpmed_engine.components module nlpmed_engine.components.duplicate_checker module nlpmed_engine.components.encoding_fixer module nlpmed_engine.components.joiner module nlpmed_engine.components.ml_inference module nlpmed_engine.components.note_filter module nlpmed_engine.components.pattern_replacer module nlpmed_engine.components.section_filter module nlpmed_engine.components.section_splitter module nlpmed_engine.components.sentence_expander module nlpmed_engine.components.sentence_filter module

nlpmed_engine.components.sentence_segmenter module nlpmed_engine.components.word_masker module nlpmed_engine.data_structures module nlpmed_engine.data_structures.note module nlpmed_engine.data_structures.patient module nlpmed_engine.data_structures.section module nlpmed_engine.data_structures.sentence module nlpmed_engine.pipelines module nlpmed_engine.pipelines.base_pipeline module nlpmed_engine.pipelines.batch_pipeline module nlpmed_engine.pipelines.single_pipeline module nlpmed_engine.utils module nlpmed_engine.utils.utils module Note (class in nlpmed_engine.data_structures.note) note (nlpmed_engine.api.models.TextProcessingResponseModel attribute) note_filter (nlpmed_engine.api.models.ConfigModel attribute) NoteFilter (class in nlpmed_engine.components.note_filter) NoteFilterModel (class in nlpmed_engine.api.models) NoteModel (class in nlpmed_engine.api.models) notes (nlpmed_engine.api.models.PatientModel attribute) (nlpmed_engine.data_structures.patient.Patient attribute) num_perm (nlpmed_engine.api.models.DuplicateCheckerModel attribute)

P

Patient (class in nlpmed_engine.data_structures.patient) patient_id (nlpmed_engine.api.models.PatientModel attribute) (nlpmed_engine.data_structures.patient.Patient attribute) PatientModel (class in nlpmed_engine.api.models) pattern (nlpmed_engine.api.models.PatternReplacerModel attribute) pattern_replacer (nlpmed_engine.api.models.ConfigModel attribute) PatternReplacer (class in nlpmed_engine.components.pattern_replacer) PatternReplacerModel (class in nlpmed_engine.api.models) predicted_label (nlpmed_engine.api.models.NoteModel attribute) (nlpmed_engine.api.models.TextProcessingResponseModel attribute) (nlpmed_engine.data_structures.note.Note attribute) predicted_score (nlpmed_engine.api.models.NoteModel attribute) (nlpmed_engine.api.models.TextProcessingResponseModel attribute) (nlpmed_engine.data_structures.note.Note attribute) preprocess_params() (nlpmed_engine.pipelines.base_pipeline.BasePipeline method) preprocessed_text (nlpmed_engine.api.models.NoteModel attribute) (nlpmed_engine.api.models.TextProcessingResponseModel attribute) (nlpmed_engine.data_structures.note.Note attribute)

process() (nlpmed_engine.components.duplicate_checker.DuplicateChecker method) (nlpmed_engine.components.encoding_fixer.EncodingFixer method) (nlpmed_engine.components.joiner.Joiner method) (nlpmed_engine.components.ml_inference.MLInference method) (nlpmed_engine.components.note_filter.NoteFilter method) (nlpmed_engine.components.pattern_replacer.PatternReplacer method) (nlpmed_engine.components.section_filter.SectionFilter method) (nlpmed_engine.components.section_splitter.SectionSplitter method) (nlpmed_engine.components.sentence_expander.SentenceExpander method) (nlpmed_engine.components.sentence_filter.SentenceFilter method) (nlpmed_engine.components.sentence_segmenter.SentenceSegmenter method) (nlpmed_engine.components.word_masker.WordMasker method) (nlpmed_engine.pipelines.batch_pipeline.BatchPipeline method) (nlpmed_engine.pipelines.single_pipeline.SinglePipeline method) process_batch_patients() (in module nlpmed_engine.api.routes) (nlpmed_engine.components.ml_inference.MLInference method) (nlpmed_engine.components.sentence_segmenter.SentenceSegmenter method) process_patient() (in module nlpmed_engine.api.routes) process_text() (in module nlpmed_engine.api.routes)

S

Section (class in nlpmed_engine.data_structures.section) section_delimiter (nlpmed_engine.api.models.JoinerModel attribute) section_exc_list (nlpmed_engine.api.models.SectionFilterModel attribute) section_filter (nlpmed_engine.api.models.ConfigModel attribute) section_inc_list (nlpmed_engine.api.models.SectionFilterModel attribute) section_splitter (nlpmed_engine.api.models.ConfigModel attribute) SectionFilter (class in nlpmed_engine.components.section_filter) SectionFilterModel (class in nlpmed_engine.api.models) SectionModel (class in nlpmed_engine.api.models) sections (nlpmed_engine.api.models.NoteModel attribute) (nlpmed_engine.data_structures.note.Note attribute) SectionSplitter (class in nlpmed_engine.components.section_splitter) SectionSplitterModel (class in nlpmed_engine.api.models) Sentence (class in nlpmed_engine.data_structures.sentence) sentence_delimiter (nlpmed_engine.api.models.JoinerModel attribute) sentence_expander (nlpmed_engine.api.models.ConfigModel attribute) sentence_filter (nlpmed_engine.api.models.ConfigModel attribute) sentence_segmenter (nlpmed_engine.api.models.ConfigModel attribute)

SentenceExpander (class in nlpmed_engine.components.sentence_expander) SentenceExpanderModel (class in nlpmed_engine.api.models) SentenceFilter (class in nlpmed_engine.components.sentence_filter) SentenceFilterModel (class in nlpmed_engine.api.models) SentenceModel (class in nlpmed_engine.api.models) sentences (nlpmed_engine.api.models.SectionModel attribute) (nlpmed_engine.data_structures.section.Section attribute) SentenceSegmenter (class in nlpmed_engine.components.sentence_segmenter) SentenceSegmenterModel (class in nlpmed_engine.api.models) sim_threshold (nlpmed_engine.api.models.DuplicateCheckerModel attribute) SinglePipeline (class in nlpmed_engine.pipelines.single_pipeline) start_index (nlpmed_engine.api.models.SectionModel attribute) (nlpmed_engine.api.models.SentenceModel attribute) (nlpmed_engine.data_structures.section.Section attribute) (nlpmed_engine.data_structures.sentence.Sentence attribute) status (nlpmed_engine.api.models.ComponentStatusModel attribute) (nlpmed_engine.pipelines.base_pipeline.ComponentDict attribute) StringInputModel (class in nlpmed_engine.api.models)

T

target (nlpmed_engine.api.models.PatternReplacerModel attribute) text (nlpmed_engine.api.models.NoteModel attribute) (nlpmed_engine.api.models.SectionModel attribute) (nlpmed_engine.api.models.SentenceModel attribute) (nlpmed_engine.api.models.StringInputModel attribute) (nlpmed_engine.data_structures.note.Note attribute) (nlpmed_engine.data_structures.section.Section attribute) (nlpmed_engine.data_structures.sentence.Sentence attribute)

TextProcessingResponseModel (class in nlpmed_engine.api.models)

W

word_masker (nlpmed_engine.api.models.ConfigModel attribute) WordMasker (class in nlpmed_engine.components.word_masker) WordMaskerModel (class in nlpmed_engine.api.models)

words_to_mask (nlpmed_engine.api.models.WordMaskerModel attribute) words_to_search (nlpmed_engine.api.models.NoteFilterModel attribute) (nlpmed_engine.api.models.SentenceFilterModel attribute)