Index

A

add_metadata_to_dataframe() (in module nimare.utils) ALE (class in nimare.meta.cbma.ale) ale_sleuth_workflow() (in module nimare.workflows)

ALEKernel (class in nimare.meta.kernel) ALESubtraction (class in nimare.meta.cbma.ale) annotations (Dataset property)

B

brainmap_decode() (in module nimare.decode.discrete)

BrainMapDecoder (class in nimare.decode.discrete)

C

CBMAEstimator (class in nimare.meta.cbma.base) check_type() (in module nimare.utils) CogAtLemmatizer (class in nimare.annotate.cogat) compute_log_likelihood() (GCLDAModel method) compute_summarystat() (ALE method) (ALESubtraction method) (CBMAEstimator method) (KDA method) (MKDAChi2 method) (MKDADensity method) (PairwiseCBMAEstimator method) (SCALE method) conperm_workflow() (in module nimare.workflows) 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) correct_fdr_bh() (MKDAChi2 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_coordinate_dataset() (in module nimare.generate) create_neurovault_dataset() (in module nimare.generate)

D

Dataset (class in nimare.dataset) Decoder (class in nimare.base) DerSimonianLaird (class in nimare.meta.ibma) dict_to_coordinates() (in module nimare.utils) dict_to_df() (in module nimare.utils)

download_abstracts() (in module nimare.extract) download_cognitive_atlas() (in module nimare.extract) download_mallet() (in module nimare.extract) download_nidm_pain() (in module nimare.extract) download_peaks2maps_model() (in module nimare.extract)

E

Estimator (class in nimare.base)

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

F

fdr() (in module nimare.stats) FDRCorrector (class in nimare.correct) fetch_neuroquery() (in module nimare.extract) fetch_neurosynth() (in module nimare.extract) find_stem() (in module nimare.utils) Fishers (class in nimare.meta.ibma) fit() (ALE method) (ALESubtraction method) (BrainMapDecoder method) (CBMAEstimator method) (CorrelationDecoder method) (CorrelationDistributionDecoder method) (Decoder method) (DerSimonianLaird method) (Estimator method) (Fishers method) (GCLDAModel method) (Hedges method) (KDA method) (LDAModel method) (MetaEstimator method) (MKDAChi2 method) (MKDADensity method) (NeurosynthDecoder method) (PairwiseCBMAEstimator method) (PermutedOLS method) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE method) (Stouffers method) (VarianceBasedLikelihood method) (WeightedLeastSquares 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_data_dirs() (in module nimare.extract.utils) get_images() (Dataset method) get_labels() (Dataset method) get_map() (MetaResult method) get_masker() (in module nimare.utils) get_metadata() (Dataset method) get_params() (ALE method) (ALEKernel method) (ALESubtraction method) (BrainMapDecoder method) (CBMAEstimator method) (CorrelationDecoder method) (CorrelationDistributionDecoder method) (Dataset method) (Decoder method) (DerSimonianLaird method) (Estimator method) (Fishers method) (GCLDAModel method) (Hedges method) (ImagesToCoordinates method) (ImageTransformer method) (KDA method) (KDAKernel method) (KernelTransformer method) (LDAModel method) (MetaEstimator method) (MKDAChi2 method) (MKDADensity method) (MKDAKernel method) (NeurosynthDecoder method) (NiMAREBase method) (PairwiseCBMAEstimator method) (Peaks2MapsKernel method) (PermutedOLS method) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE method) (Stouffers method) (Transformer method) (VarianceBasedLikelihood method) (WeightedLeastSquares 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)

H

Hedges (class in nimare.meta.ibma)

I

ids (Dataset property) images (Dataset property) ImagesToCoordinates (class in nimare.transforms)

ImageTransformer (class in nimare.transforms) inspect() (FDRCorrector class method) (FWECorrector class method)

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) listify() (in module nimare.utils) load() (ALE class method) (ALEKernel class method) (ALESubtraction class method) (BrainMapDecoder class method) (CBMAEstimator class method) (CorrelationDecoder class method) (CorrelationDistributionDecoder class method) (Dataset class method) (Decoder class method) (DerSimonianLaird class method) (Estimator class method) (Fishers class method) (GCLDAModel class method) (Hedges class method) (ImagesToCoordinates class method) (ImageTransformer class method) (KDA class method) (KDAKernel class method) (KernelTransformer class method) (LDAModel class method) (MetaEstimator class method) (MKDAChi2 class method) (MKDADensity class method) (MKDAKernel class method) (NeurosynthDecoder class method) (NiMAREBase class method) (PairwiseCBMAEstimator class method) (Peaks2MapsKernel class method) (PermutedOLS class method) (ROIAssociationDecoder class method) (SampleSizeBasedLikelihood class method) (SCALE class method) (Stouffers class method) (Transformer class method) (VarianceBasedLikelihood class method) (WeightedLeastSquares class method)

M

macm_workflow() (in module nimare.workflows) masker (Dataset property) merge() (Dataset method) metadata (Dataset property) MetaEstimator (class in nimare.base) 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.continuous nimare.decode.discrete nimare.decode.encode nimare.extract nimare.generate nimare.io nimare.meta nimare.meta.cbma.ale nimare.meta.cbma.base nimare.meta.cbma.mkda nimare.meta.ibma nimare.meta.kernel 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.continuous module nimare.decode.discrete module nimare.decode.encode 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.ibma module nimare.meta.kernel 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) peaks2maps_workflow() (in module nimare.workflows)

Peaks2MapsKernel (class in nimare.meta.kernel) pearson() (in module nimare.stats) PermutedOLS (class in nimare.meta.ibma)

R

resolve_transforms() (in module nimare.transforms)

ROIAssociationDecoder (class in nimare.decode.discrete) round2() (in module nimare.utils)

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) (CorrelationDecoder method) (CorrelationDistributionDecoder method) (Dataset method) (Decoder method) (DerSimonianLaird method) (Estimator method) (Fishers method) (GCLDAModel method) (Hedges method) (ImagesToCoordinates method) (ImageTransformer method) (KDA method) (KDAKernel method) (KernelTransformer method) (LDAModel method) (MetaEstimator method) (MKDAChi2 method) (MKDADensity method) (MKDAKernel method) (NeurosynthDecoder method) (NiMAREBase method) (PairwiseCBMAEstimator method) (Peaks2MapsKernel method) (PermutedOLS method) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE method) (Stouffers method) (Transformer method) (VarianceBasedLikelihood method) (WeightedLeastSquares method) save_maps() (MetaResult method)

SCALE (class in nimare.meta.cbma.ale) scale_workflow() (in module nimare.workflows) 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) (CorrelationDecoder method) (CorrelationDistributionDecoder method) (Dataset method) (Decoder method) (DerSimonianLaird method) (Estimator method) (Fishers method) (GCLDAModel method) (Hedges method) (ImagesToCoordinates method) (ImageTransformer method) (KDA method) (KDAKernel method) (KernelTransformer method) (LDAModel method) (MetaEstimator method) (MKDAChi2 method) (MKDADensity method) (MKDAKernel method) (NeurosynthDecoder method) (NiMAREBase method) (PairwiseCBMAEstimator method) (Peaks2MapsKernel method) (PermutedOLS method) (ROIAssociationDecoder method) (SampleSizeBasedLikelihood method) (SCALE method) (Stouffers method) (Transformer method) (VarianceBasedLikelihood method) (WeightedLeastSquares method) slice() (Dataset method) Stouffers (class in nimare.meta.ibma)

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) text2brain() (in module nimare.decode.encode) texts (Dataset property) transform() (ALEKernel method) (BrainMapDecoder method) (CogAtLemmatizer method) (CorrelationDecoder method) (CorrelationDistributionDecoder method) (FDRCorrector method) (FWECorrector method) (ImagesToCoordinates method) (ImageTransformer method) (KDAKernel method) (KernelTransformer method) (MKDAKernel method) (NeurosynthDecoder method) (Peaks2MapsKernel method) (ROIAssociationDecoder method) (Transformer method)

transform_images() (in module nimare.transforms) Transformer (class in nimare.base) try_prepend() (in module nimare.utils) two_way() (in module nimare.stats)

U

uk_to_us() (in module nimare.utils)

update_path() (Dataset method) use_memmap() (in module nimare.utils)

V

validate_df() (in module nimare.utils) validate_images_df() (in module nimare.utils)

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)