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)

B

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) CogAtLemmatizer (class in nimare.annotate.cogat) combine_analyses() (Studyset method) compute_log_likelihood() (GCLDAModel method) Condition (class in nimare.nimads) conjunction_analysis() (in module nimare.workflows.misc) 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_sleuth_to_dataset() (in module nimare.io) convert_sleuth_to_dict() (in module nimare.io) convert_sleuth_to_json() (in module nimare.io) coordinates (Dataset property) copy() (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) (CBMAEstimator method) (KDA method) (MKDAChi2 method) (MKDADensity method) (PairwiseCBMAEstimator method) (PermutedOLS method) (SCALE 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_neurovault_dataset() (in module nimare.generate) create_regular_expressions() (CBMRInference method)

D

Dataset (class in nimare.dataset) Decoder (class in nimare.decode.base) DerSimonianLaird (class in nimare.meta.ibma) description_ (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)

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_neurosynth() (in module nimare.extract) Fishers (class in nimare.meta.ibma) fit() (ALE method) (ALESubtraction 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_nimads() (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) get_analyses() (Study method) get_analyses_by_annotations() (Studyset method) get_analyses_by_coordinates() (Studyset method) get_analyses_by_images() (Studyset method) get_analyses_by_mask() (Studyset method) get_analyses_by_metadata() (Studyset method) get_analyses_by_texts() (Studyset method) get_annotations() (Studyset method) get_data_dirs() (in module nimare.extract.utils) get_images() (Dataset method) (Studyset method) get_labels() (Dataset method) get_map() (MetaResult method) get_masker() (in module nimare.utils) get_metadata() (Dataset method) (Studyset method) get_params() (ALE method) (ALEKernel method) (ALESubtraction method) (BrainMapDecoder method) (CBMAEstimator method) (CBMREstimator 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) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE 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) get_studies_by_label() (Dataset method) get_studies_by_mask() (Dataset method) get_template() (in module nimare.utils) get_texts() (Dataset method) (Studyset method)

H

Hedges (class in nimare.meta.ibma)

I

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

images (Dataset property) ImagesToCoordinates (class in nimare.transforms) ImageTransformer (class in nimare.transforms) inspect() (FDRCorrector class method) (FWECorrector class method)

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) (BrainMapDecoder class method) (CBMAEstimator class method) (CBMREstimator 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) (ROIAssociationDecoder class method) (SampleSizeBasedLikelihood class method) (SCALE 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) merge() (Dataset method) (Studyset method) metadata (Dataset 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) 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

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) (BrainMapDecoder method) (CBMAEstimator method) (CBMREstimator 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) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE method) (Stouffers method) (Studyset method) (VarianceBasedLikelihood method) (WeightedLeastSquares method) save_maps() (MetaResult method) save_tables() (MetaResult method)

SCALE (class in nimare.meta.cbma.ale) sd_to_varcope() (in module nimare.transforms) se_to_varcope() (in module nimare.transforms) set_params() (ALE method) (ALEKernel method) (ALESubtraction method) (BrainMapDecoder method) (CBMAEstimator method) (CBMREstimator 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) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE method) (Stouffers method) (VarianceBasedLikelihood method) (WeightedLeastSquares method) slice() (Dataset method) (Studyset method) Stouffers (class in nimare.meta.ibma) Study (class in nimare.nimads) 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_z() (in module nimare.transforms) tal2mni() (in module nimare.utils) texts (Dataset property) to_dataset() (Studyset method) to_dict() (Analysis method) (Annotation method) (Condition method) (Image method) (Point method) (Study method) (Studyset method) to_nimads() (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) (ROIAssociationDecoder method)

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

U

unique_rows() (in module nimare.utils)

update_image_path() (Studyset method) update_path() (Dataset 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)