Index

A

ALE (class in nimare.meta.cbma.ale) ALEKernel (class in nimare.meta.kernel) ALESubtraction (class in nimare.meta.cbma.ale) Analysis (class in nimare.nimads)

Annotation (class in nimare.nimads) annotations (Dataset property) (Studyset property) annotations_df (Dataset property) (Studyset property)

B

BalancedALESubtraction (class in nimare.meta.cbma.ale) basepath (Studyset property)

beta brainmap_decode() (in module nimare.decode.discrete) BrainMapDecoder (class in nimare.decode.discrete)

C

CBMAEstimator (class in nimare.meta.cbma.base) CBMAWorkflow() (in module nimare.workflows.cbma) CBMREstimator (class in nimare.meta.cbmr) CBMRInference (class in nimare.meta.cbmr) CBMRResult (class in nimare.meta.cbmr) CogAtLemmatizer (class in nimare.annotate.cogat) combine_analyses() (Studyset method) compare_groups() (CBMRResult method) compare_moderators() (CBMRResult method) compute_log_likelihood() (GCLDAModel method) Condition (class in nimare.nimads) conjunction_analysis() (in module nimare.workflows.misc) ContrastWorkflow() (in module nimare.workflows.cbma) convert_dataset_to_nimads_dict() (in module nimare.io) convert_dataset_to_studyset() (in module nimare.io) convert_neurostore_json_to_parquet (class in nimare.nimads) convert_neurosynth_to_dataset() (in module nimare.io) convert_neurosynth_to_dict() (in module nimare.io) convert_neurosynth_to_json() (in module nimare.io) convert_neurovault_to_dataset() (in module nimare.io) convert_nimads_to_dataset() (in module nimare.io) convert_nimads_to_sleuth() (in module nimare.io) convert_sleuth_to_dataset() (in module nimare.io) convert_sleuth_to_dict() (in module nimare.io) convert_sleuth_to_json() (in module nimare.io) convert_sleuth_to_studyset() (in module nimare.io) coordinates (Dataset property) (Studyset property)

copy() (CBMRResult method) (Dataset method) (MetaResult method) (Studyset method) correct_fdr_indep() (FDRCorrector method) (MKDAChi2 method) correct_fdr_negcorr() (FDRCorrector method) correct_fwe_bonferroni() (FWECorrector method) correct_fwe_montecarlo() (ALE method) (ALESubtraction method) (BalancedALESubtraction method) (CBMAEstimator method) (KDA method) (MKDAChi2 method) (MKDADensity method) (PairwiseCBMAEstimator method) (PermutedOLS method) (SCALE method) correct_fwe_predictive() (ALE method) CorrelationDecoder (class in nimare.decode.continuous) CorrelationDistributionDecoder (class in nimare.decode.continuous) create_contrast() (CBMRInference method) create_coordinate_dataset() (in module nimare.generate) create_coordinate_studyset() (in module nimare.generate) create_neurovault_dataset() (in module nimare.generate) create_neurovault_studyset() (in module nimare.generate) create_regular_expressions() (CBMRInference method)

D

d_to_g() (in module nimare.transforms) Dataset (class in nimare.dataset) Decoder (class in nimare.decode.base) DerSimonianLaird (class in nimare.meta.ibma) describe_inference_inputs() (CBMRResult method)

description_ (CBMRResult property) (MetaResult property) display() (CBMRInference method) download_abstracts() (in module nimare.extract) download_cognitive_atlas() (in module nimare.extract) download_nidm_pain() (in module nimare.extract)

E

Estimator (class in nimare.estimator) exclude_study_ids() (Studyset method)

expand_counts() (in module nimare.annotate.cogat) extract_cogat() (in module nimare.annotate.cogat)

F

FDRCorrector (class in nimare.correct) fetch_neuroquery() (in module nimare.extract) fetch_neurostore_studyset() (in module nimare.io) fetch_neurosynth() (in module nimare.extract) filter_annotations() (Studyset method) filter_ids() (Studyset method) filter_metadata() (Studyset method) filter_study_ids() (Studyset method) Fishers (class in nimare.meta.ibma) fit() (ALE method) (ALESubtraction method) (BalancedALESubtraction method) (BrainMapDecoder method) (CBMAEstimator method) (CBMREstimator method) (CBMRInference method) (CorrelationDecoder method) (CorrelationDistributionDecoder method) (Decoder method) (DerSimonianLaird method) (Estimator method) (Fishers method) (FixedEffectsHedges method) (GCLDAModel method) (Hedges method) (IBMAEstimator method) (KDA method) (LDAModel method) (MKDAChi2 method) (MKDADensity method) (NeurosynthDecoder method) (PairwiseCBMAEstimator method) (PermutedOLS method) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE method) (Stouffers method) (VarianceBasedLikelihood method) (WeightedLeastSquares method)

fit_transform() (CBMRInference method) FixedEffectsHedges (class in nimare.meta.ibma) FocusCounter (class in nimare.diagnostics) FocusFilter (class in nimare.diagnostics) from_dataset() (Studyset class method) from_nimads() (Studyset class method) from_sleuth() (Studyset class method) from_table_cache() (Studyset class method) FWECorrector (class in nimare.correct)

G

gclda_decode_map() (in module nimare.decode.continuous) gclda_decode_roi() (in module nimare.decode.discrete) gclda_encode() (in module nimare.decode.encode) GCLDAModel (class in nimare.annotate.gclda) generate_counts() (in module nimare.annotate.text) get() (Dataset method) (Studyset method) get_analyses() (Study method) get_analyses_by_annotations() (Studyset method) get_analyses_by_coordinate() (Studyset method) get_analyses_by_label() (Studyset method) get_analyses_by_mask() (Studyset method) get_analyses_by_metadata() (Studyset method) get_annotations() (Studyset method) get_data_dirs() (in module nimare.extract.utils) get_images() (Dataset method) (Studyset method) get_inference() (CBMRResult method) get_labels() (Dataset method) (Studyset method) get_map() (CBMRResult method) (MetaResult method) get_masker() (in module nimare.utils) get_metadata() (Analysis method) (Dataset method) (Studyset method) get_params() (ALE method) (ALEKernel method) (ALESubtraction method) (BalancedALESubtraction method) (BrainMapDecoder method) (CBMAEstimator method) (CBMREstimator method) (CBMRResult method) (CorrelationDecoder method) (CorrelationDistributionDecoder method) (Dataset method) (Decoder method) (DerSimonianLaird method) (Estimator method) (FDRCorrector method) (Fishers method) (FixedEffectsHedges method) (FocusCounter method) (FocusFilter method) (FWECorrector method) (GCLDAModel method) (Hedges method) (IBMAEstimator method) (ImagesToCoordinates method) (ImageTransformer method) (Jackknife method) (KDA method) (KDAKernel method) (KernelTransformer method) (LDAModel method) (MetaResult method) (MKDAChi2 method) (MKDADensity method) (MKDAKernel method) (NeurosynthDecoder method) (NiMAREBase method) (PairwiseCBMAEstimator method) (PermutedOLS method) (ResampledStability method) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE method) (StandardizeField method) (Stouffers method) (VarianceBasedLikelihood method) (WeightedLeastSquares method)

get_points() (Studyset method) get_probability_distributions() (GCLDAModel method) get_resource_path() (in module nimare.utils) get_studies_by_coordinate() (Dataset method) (Studyset method) get_studies_by_label() (Dataset method) (Studyset method) get_studies_by_mask() (Dataset method) (Studyset method) get_template() (in module nimare.utils) get_texts() (Dataset method) (Studyset method) groups (CBMRResult property)

H

Hedges (class in nimare.meta.ibma)

I

IBMAEstimator (class in nimare.meta.ibma) IBMAWorkflow() (in module nimare.workflows.ibma) ids (Dataset property) (Studyset property) Image (class in nimare.nimads) images (Dataset property) (Studyset property)

ImagesToCoordinates (class in nimare.transforms) ImageTransformer (class in nimare.transforms) infer() (CBMRResult method) inspect() (FDRCorrector class method) (FWECorrector class method) is_execution_ready (Studyset property) is_materialized (Studyset property)

J

Jackknife (class in nimare.diagnostics)

K

KDA (class in nimare.meta.cbma.mkda)

KDAKernel (class in nimare.meta.kernel) KernelTransformer (class in nimare.meta.kernel)

L

LDAModel (class in nimare.annotate.lda) load() (ALE class method) (ALEKernel class method) (ALESubtraction class method) (BalancedALESubtraction class method) (BrainMapDecoder class method) (CBMAEstimator class method) (CBMREstimator class method) (CBMRResult class method) (CorrelationDecoder class method) (CorrelationDistributionDecoder class method) (Dataset class method) (Decoder class method) (DerSimonianLaird class method) (Estimator class method) (FDRCorrector class method) (Fishers class method) (FixedEffectsHedges class method) (FocusCounter class method) (FocusFilter class method) (FWECorrector class method) (GCLDAModel class method) (Hedges class method) (IBMAEstimator class method) (ImagesToCoordinates class method) (ImageTransformer class method) (Jackknife class method) (KDA class method) (KDAKernel class method) (KernelTransformer class method) (LDAModel class method) (MetaResult class method) (MKDAChi2 class method) (MKDADensity class method) (MKDAKernel class method) (NeurosynthDecoder class method) (NiMAREBase class method) (PairwiseCBMAEstimator class method) (PermutedOLS class method) (ResampledStability class method) (ROIAssociationDecoder class method) (SampleSizeBasedLikelihood class method) (SCALE class method) (StandardizeField class method) (Stouffers class method) (Studyset method) (VarianceBasedLikelihood class method) (WeightedLeastSquares class method)

load_imgs() (CorrelationDecoder method)

M

macm_workflow() (in module nimare.workflows) masker (Dataset property) (Studyset property) materialize() (Studyset method) merge() (Dataset method) (Studyset method) metadata (Dataset property) (Studyset property) MetaResult (class in nimare.results) MKDAChi2 (class in nimare.meta.cbma.mkda) MKDADensity (class in nimare.meta.cbma.mkda) MKDAKernel (class in nimare.meta.kernel) mm2vox() (in module nimare.utils) mni2tal() (in module nimare.utils) moderators (CBMRResult property) module nimare.annotate nimare.annotate.cogat nimare.annotate.gclda nimare.annotate.lda nimare.annotate.text nimare.annotate.utils nimare.base nimare.correct nimare.dataset nimare.decode nimare.decode.base nimare.decode.continuous nimare.decode.discrete nimare.decode.encode nimare.diagnostics nimare.extract nimare.generate nimare.io nimare.meta nimare.meta.cbma.ale nimare.meta.cbma.base nimare.meta.cbma.mkda nimare.meta.cbmr nimare.meta.ibma nimare.meta.kernel nimare.nimads nimare.reports nimare.results nimare.stats nimare.transforms nimare.utils nimare.workflows

N

neurosynth_decode() (in module nimare.decode.discrete) NeurosynthDecoder (class in nimare.decode.discrete) nimare.annotate module nimare.annotate.cogat module nimare.annotate.gclda module nimare.annotate.lda module nimare.annotate.text module nimare.annotate.utils module nimare.base module nimare.correct module nimare.dataset module nimare.decode module nimare.decode.base module nimare.decode.continuous module nimare.decode.discrete module nimare.decode.encode module nimare.diagnostics module nimare.extract module

nimare.generate module nimare.io module nimare.meta module nimare.meta.cbma.ale module nimare.meta.cbma.base module nimare.meta.cbma.mkda module nimare.meta.cbmr module nimare.meta.ibma module nimare.meta.kernel module nimare.nimads module nimare.reports module nimare.results module nimare.stats module nimare.transforms module nimare.utils module nimare.workflows module NiMAREBase (class in nimare.base) null_to_p() (in module nimare.stats) nullhist_to_p() (in module nimare.stats)

O

one_way() (in module nimare.stats)

P

p_to_z() (in module nimare.transforms) PairwiseCBMAEstimator (class in nimare.meta.cbma.base) PairwiseCBMAWorkflow() (in module nimare.workflows.cbma)

pearson() (in module nimare.stats) PermutedOLS (class in nimare.meta.ibma) Point (class in nimare.nimads)

R

ResampledStability (class in nimare.diagnostics) resolve_transforms() (in module nimare.transforms)

ROIAssociationDecoder (class in nimare.decode.discrete) run_reports() (in module nimare.reports)

S

sample_sizes_to_dof() (in module nimare.transforms) sample_sizes_to_sample_size() (in module nimare.transforms) SampleSizeBasedLikelihood (class in nimare.meta.ibma) samplevar_dataset_to_varcope() (in module nimare.transforms) save() (ALE method) (ALEKernel method) (ALESubtraction method) (BalancedALESubtraction method) (BrainMapDecoder method) (CBMAEstimator method) (CBMREstimator method) (CBMRResult method) (CorrelationDecoder method) (CorrelationDistributionDecoder method) (Dataset method) (Decoder method) (DerSimonianLaird method) (Estimator method) (FDRCorrector method) (Fishers method) (FixedEffectsHedges method) (FocusCounter method) (FocusFilter method) (FWECorrector method) (GCLDAModel method) (Hedges method) (IBMAEstimator method) (ImagesToCoordinates method) (ImageTransformer method) (Jackknife method) (KDA method) (KDAKernel method) (KernelTransformer method) (LDAModel method) (MetaResult method) (MKDAChi2 method) (MKDADensity method) (MKDAKernel method) (NeurosynthDecoder method) (NiMAREBase method) (PairwiseCBMAEstimator method) (PermutedOLS method) (ResampledStability method) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE method) (StandardizeField method) (Stouffers method) (Studyset method) (VarianceBasedLikelihood method) (WeightedLeastSquares method) save_maps() (CBMRResult method) (MetaResult method) save_tables() (CBMRResult method) (MetaResult method) SCALE (class in nimare.meta.cbma.ale) sd_to_varcope() (in module nimare.transforms)

se_to_varcope() (in module nimare.transforms) set_annotations_df() (Studyset method) set_params() (ALE method) (ALEKernel method) (ALESubtraction method) (BalancedALESubtraction method) (BrainMapDecoder method) (CBMAEstimator method) (CBMREstimator method) (CBMRResult method) (CorrelationDecoder method) (CorrelationDistributionDecoder method) (Dataset method) (Decoder method) (DerSimonianLaird method) (Estimator method) (FDRCorrector method) (Fishers method) (FixedEffectsHedges method) (FocusCounter method) (FocusFilter method) (FWECorrector method) (GCLDAModel method) (Hedges method) (IBMAEstimator method) (ImagesToCoordinates method) (ImageTransformer method) (Jackknife method) (KDA method) (KDAKernel method) (KernelTransformer method) (LDAModel method) (MetaResult method) (MKDAChi2 method) (MKDADensity method) (MKDAKernel method) (NeurosynthDecoder method) (NiMAREBase method) (PairwiseCBMAEstimator method) (PermutedOLS method) (ResampledStability method) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE method) (StandardizeField method) (Stouffers method) (VarianceBasedLikelihood method) (WeightedLeastSquares method) slice() (Dataset method) (Studyset method) space (Studyset property) StandardizeField (class in nimare.transforms) Stouffers (class in nimare.meta.ibma) studies (Studyset property) Study (class in nimare.nimads) study_ids (Studyset property) Studyset (class in nimare.nimads)

T

t_and_beta_to_varcope() (in module nimare.transforms) t_and_varcope_to_beta() (in module nimare.transforms) t_to_d() (in module nimare.transforms) t_to_z() (in module nimare.transforms) tal2mni() (in module nimare.utils) test_groups() (CBMRResult method) test_moderators() (CBMRResult method) texts (Dataset property) (Studyset property) threshold_image() (in module nimare.transforms) to_dataset() (Studyset method) to_dict() (Analysis method) (Annotation method) (Condition method) (Image method) (Point method) (Study method) (Studyset method) to_nimads() (Studyset method) touch() (Studyset method) transform() (ALEKernel method) (BrainMapDecoder method) (CBMRInference method) (CogAtLemmatizer method) (CorrelationDecoder method) (CorrelationDistributionDecoder method) (FDRCorrector method) (FocusCounter method) (FocusFilter method) (FWECorrector method) (ImagesToCoordinates method) (ImageTransformer method) (Jackknife method) (KDAKernel method) (KernelTransformer method) (MKDAKernel method) (NeurosynthDecoder method) (ResampledStability method) (ROIAssociationDecoder method) (StandardizeField method)

transform_images() (in module nimare.transforms) two_way() (in module nimare.stats) two_way_counts() (in module nimare.stats)

U

unique_rows() (in module nimare.utils)

update_path() (Dataset method) (Studyset method)

V

varcope

VarianceBasedLikelihood (class in nimare.meta.ibma) vox2mm() (in module nimare.utils)

W

WeightedLeastSquares (class in nimare.meta.ibma)

Z

z_to_p() (in module nimare.transforms)

z_to_t() (in module nimare.transforms)