PyPI - nimare - Versions diffs - 0.4.2__py3-none-any.whl - Mend

nimare 0.4.2__py3-none-any.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (119) hide show

benchmarks/__init__.py +0 -0
benchmarks/bench_cbma.py +57 -0
nimare/__init__.py +45 -0
nimare/_version.py +21 -0
nimare/annotate/__init__.py +21 -0
nimare/annotate/cogat.py +213 -0
nimare/annotate/gclda.py +924 -0
nimare/annotate/lda.py +147 -0
nimare/annotate/text.py +75 -0
nimare/annotate/utils.py +87 -0
nimare/base.py +217 -0
nimare/cli.py +124 -0
nimare/correct.py +462 -0
nimare/dataset.py +685 -0
nimare/decode/__init__.py +33 -0
nimare/decode/base.py +115 -0
nimare/decode/continuous.py +462 -0
nimare/decode/discrete.py +753 -0
nimare/decode/encode.py +110 -0
nimare/decode/utils.py +44 -0
nimare/diagnostics.py +510 -0
nimare/estimator.py +139 -0
nimare/extract/__init__.py +19 -0
nimare/extract/extract.py +466 -0
nimare/extract/utils.py +295 -0
nimare/generate.py +331 -0
nimare/io.py +667 -0
nimare/meta/__init__.py +39 -0
nimare/meta/cbma/__init__.py +6 -0
nimare/meta/cbma/ale.py +951 -0
nimare/meta/cbma/base.py +947 -0
nimare/meta/cbma/mkda.py +1361 -0
nimare/meta/cbmr.py +970 -0
nimare/meta/ibma.py +1683 -0
nimare/meta/kernel.py +501 -0
nimare/meta/models.py +1199 -0
nimare/meta/utils.py +494 -0
nimare/nimads.py +492 -0
nimare/reports/__init__.py +24 -0
nimare/reports/base.py +664 -0
nimare/reports/default.yml +123 -0
nimare/reports/figures.py +651 -0
nimare/reports/report.tpl +160 -0
nimare/resources/__init__.py +1 -0
nimare/resources/atlases/Harvard-Oxford-LICENSE +93 -0
nimare/resources/atlases/HarvardOxford-cort-maxprob-thr25-2mm.nii.gz +0 -0
nimare/resources/database_file_manifest.json +142 -0
nimare/resources/english_spellings.csv +1738 -0
nimare/resources/filenames.json +32 -0
nimare/resources/neurosynth_laird_studies.json +58773 -0
nimare/resources/neurosynth_stoplist.txt +396 -0
nimare/resources/nidm_pain_dset.json +1349 -0
nimare/resources/references.bib +541 -0
nimare/resources/semantic_knowledge_children.txt +325 -0
nimare/resources/semantic_relatedness_children.txt +249 -0
nimare/resources/templates/MNI152_2x2x2_brainmask.nii.gz +0 -0
nimare/resources/templates/tpl-MNI152NLin6Asym_res-01_T1w.nii.gz +0 -0
nimare/resources/templates/tpl-MNI152NLin6Asym_res-01_desc-brain_mask.nii.gz +0 -0
nimare/resources/templates/tpl-MNI152NLin6Asym_res-02_T1w.nii.gz +0 -0
nimare/resources/templates/tpl-MNI152NLin6Asym_res-02_desc-brain_mask.nii.gz +0 -0
nimare/results.py +225 -0
nimare/stats.py +276 -0
nimare/tests/__init__.py +1 -0
nimare/tests/conftest.py +229 -0
nimare/tests/data/amygdala_roi.nii.gz +0 -0
nimare/tests/data/data-neurosynth_version-7_coordinates.tsv.gz +0 -0
nimare/tests/data/data-neurosynth_version-7_metadata.tsv.gz +0 -0
nimare/tests/data/data-neurosynth_version-7_vocab-terms_source-abstract_type-tfidf_features.npz +0 -0
nimare/tests/data/data-neurosynth_version-7_vocab-terms_vocabulary.txt +100 -0
nimare/tests/data/neurosynth_dset.json +2868 -0
nimare/tests/data/neurosynth_laird_studies.json +58773 -0
nimare/tests/data/nidm_pain_dset.json +1349 -0
nimare/tests/data/nimads_annotation.json +1 -0
nimare/tests/data/nimads_studyset.json +1 -0
nimare/tests/data/test_baseline.txt +2 -0
nimare/tests/data/test_pain_dataset.json +1278 -0
nimare/tests/data/test_pain_dataset_multiple_contrasts.json +1242 -0
nimare/tests/data/test_sleuth_file.txt +18 -0
nimare/tests/data/test_sleuth_file2.txt +10 -0
nimare/tests/data/test_sleuth_file3.txt +5 -0
nimare/tests/data/test_sleuth_file4.txt +5 -0
nimare/tests/data/test_sleuth_file5.txt +5 -0
nimare/tests/test_annotate_cogat.py +32 -0
nimare/tests/test_annotate_gclda.py +86 -0
nimare/tests/test_annotate_lda.py +27 -0
nimare/tests/test_dataset.py +99 -0
nimare/tests/test_decode_continuous.py +132 -0
nimare/tests/test_decode_discrete.py +92 -0
nimare/tests/test_diagnostics.py +168 -0
nimare/tests/test_estimator_performance.py +385 -0
nimare/tests/test_extract.py +46 -0
nimare/tests/test_generate.py +247 -0
nimare/tests/test_io.py +294 -0
nimare/tests/test_meta_ale.py +298 -0
nimare/tests/test_meta_cbmr.py +295 -0
nimare/tests/test_meta_ibma.py +240 -0
nimare/tests/test_meta_kernel.py +209 -0
nimare/tests/test_meta_mkda.py +234 -0
nimare/tests/test_nimads.py +21 -0
nimare/tests/test_reports.py +110 -0
nimare/tests/test_stats.py +101 -0
nimare/tests/test_transforms.py +272 -0
nimare/tests/test_utils.py +200 -0
nimare/tests/test_workflows.py +221 -0
nimare/tests/utils.py +126 -0
nimare/transforms.py +907 -0
nimare/utils.py +1367 -0
nimare/workflows/__init__.py +14 -0
nimare/workflows/base.py +189 -0
nimare/workflows/cbma.py +165 -0
nimare/workflows/ibma.py +108 -0
nimare/workflows/macm.py +77 -0
nimare/workflows/misc.py +65 -0
nimare-0.4.2.dist-info/LICENSE +21 -0
nimare-0.4.2.dist-info/METADATA +124 -0
nimare-0.4.2.dist-info/RECORD +119 -0
nimare-0.4.2.dist-info/WHEEL +5 -0
nimare-0.4.2.dist-info/entry_points.txt +2 -0
nimare-0.4.2.dist-info/top_level.txt +2 -0

nimare/resources/english_spellings.csv ADDED Viewed

@@ -0,0 +1,1738 @@
+UK,US
+accessorise,accessorize
+accessorised,accessorized
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+aeon,eon
+aeons,eons
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+aerogrammes,aerograms
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+aeroplanes ,airplanes
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+aesthetes,esthetes
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+favour,favor
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+fictionalises,fictionalizes
+fictionalising,fictionalizing
+fillet,filet
+filleted ,fileted
+filleting,fileting
+fillets ,filets
+finalisation,finalization
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+finalises,finalizes
+finalising,finalizing
+flautist,flutist
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+flavour,flavor
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+flavourings,flavorings
+flavourless,flavorless
+flavours,flavors
+flavoursome,flavorsome
+flyer / flier ,flier / flyer
+foetal,fetal
+foetid,fetid
+foetus,fetus
+foetuses,fetuses
+formalisation,formalization
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+fossilisation,fossilization
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+fraternisation,fraternization
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+fraternises,fraternizes
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+fulfil,fulfill
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+galvanise,galvanize
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+galvanises,galvanizes
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+gambolled,gamboled
+gambolling,gamboling
+gaol,jail
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+gaolbreak,jailbreak
+gaolbreaks,jailbreaks
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+gaoler,jailer
+gaolers,jailers
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+gaols,jails
+gases,gasses
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+ghettoise,ghettoize
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+glamorising,glamorizing
+glamour,glamor
+globalisation,globalization
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+globalises,globalizes
+globalising,globalizing
+glueing ,gluing
+goitre,goiter
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+gonorrhoea,gonorrhea
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+grey,gray
+greyed,grayed
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+groyne,groin
+groynes ,groins
+gruelling,grueling
+gruellingly,gruelingly
+gryphon,griffin
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+gynaecological,gynecological
+gynaecologist,gynecologist
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+haematological,hematological
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+haemoglobin,hemoglobin
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+honour,honor
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+humour,humor
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+humours,humors
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+immobilisation,immobilization
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+immobilising,immobilizing
+immortalise,immortalize
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+immunisation,immunization
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+impanelled,impaneled
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+individualise,individualize
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+industrialise,industrialize
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+industrialising,industrializing
+inflexion,inflection
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+initialise,initialize
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+initialising,initializing
+initialled,initialed
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+instal,install
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+instil,instill
+instils,instills
+institutionalisation,institutionalization
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+institutionalising,institutionalizing
+intellectualise,intellectualize
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+internalisation,internalization
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+internalises,internalizes
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+internationalisation,internationalization
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+internationalising,internationalizing
+ionisation,ionization
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+ioniser,ionizer
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+italicise,italicize
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+itemise,itemize
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+jewelled,jeweled
+jeweller,jeweler
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+jewellery,jewelry
+judgement ,judgment
+kilogramme,kilogram
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+kilometre,kilometer
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+legitimising,legitimizing
+leukaemia,leukemia
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+libelled,libeled
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+liberalisation,liberalization
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+licence,license
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+licences,licenses
+licencing,licensing
+likeable,likable
+lionisation,lionization
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+lionises,lionizes
+lionising,lionizing
+liquidise,liquidize
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+liquidiser,liquidizer
+liquidisers,liquidizers
+liquidises,liquidizes
+liquidising,liquidizing
+litre,liter
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+localise,localize
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+localising,localizing
+louvre,louver
+louvred,louvered
+louvres,louvers
+lustre,luster
+magnetise,magnetize
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+magnetises,magnetizes
+magnetising,magnetizing
+manoeuvrability,maneuverability
+manoeuvrable,maneuverable
+manoeuvre,maneuver
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+manoeuvring,maneuvering
+manoeuvrings,maneuverings
+marginalisation,marginalization
+marginalise,marginalize
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+marginalises,marginalizes
+marginalising,marginalizing
+marshalled,marshaled
+marshalling,marshaling
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+marvellous,marvelous
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+materialisation,materialization
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+maximisation,maximization
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+maximising,maximizing
+meagre,meager
+mechanisation,mechanization
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+mechanising,mechanizing
+mediaeval,medieval
+memorialise,memorialize
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+memorise,memorize
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+memorises,memorizes
+memorising,memorizing
+mesmerise,mesmerize
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+mesmerises,mesmerizes
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+metabolise,metabolize
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+metabolising,metabolizing
+metre,meter
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+micrometre,micrometer
+micrometres,micrometers
+militarise,militarize
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+militarises,militarizes
+militarising,militarizing
+milligramme,milligram
+milligrammes,milligrams
+millilitre,milliliter
+millilitres,milliliters
+millimetre,millimeter
+millimetres,millimeters
+miniaturisation,miniaturization
+miniaturise,miniaturize
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+miniaturises,miniaturizes
+miniaturising,miniaturizing
+minibuses,minibusses
+minimise,minimize
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+minimises,minimizes
+minimising,minimizing
+misbehaviour,misbehavior
+misdemeanour,misdemeanor
+misdemeanours,misdemeanors
+misspelt,misspelled
+mitre,miter
+mitres,miters
+mobilisation,mobilization
+mobilise,mobilize
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+mobilises,mobilizes
+mobilising,mobilizing
+modelled,modeled
+modeller,modeler
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+modernise,modernize
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+modernises,modernizes
+modernising,modernizing
+moisturise,moisturize
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+moisturiser,moisturizer
+moisturisers,moisturizers
+moisturises,moisturizes
+moisturising,moisturizing
+monologue,monolog
+monologues,monologs
+monopolisation,monopolization
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+monopolises,monopolizes
+monopolising,monopolizing
+moralise,moralize
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+moralising,moralizing
+motorised,motorized
+mould,mold
+moulded,molded
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+mouldering,moldering
+moulders,molders
+mouldier,moldier
+mouldiest,moldiest
+moulding,molding
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+moulds,molds
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+moult,molt
+moulted,molted
+moulting,molting
+moults,molts
+moustache,mustache
+moustached,mustached
+moustaches,mustaches
+moustachioed,mustachioed
+multicoloured,multicolored
+nationalisation,nationalization
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+nationalising,nationalizing
+naturalisation,naturalization
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+naturalising,naturalizing
+neighbour,neighbor
+neighbourhood,neighborhood
+neighbourhoods,neighborhoods
+neighbouring,neighboring
+neighbourliness,neighborliness
+neighbourly,neighborly
+neighbours,neighbors
+neutralisation,neutralization
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+neutralising,neutralizing
+normalisation,normalization
+normalise,normalize
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+normalising,normalizing
+odour,odor
+odourless,odorless
+odours,odors
+oesophagus,esophagus
+oesophaguses,esophaguses
+oestrogen,estrogen
+offence,offense
+offences,offenses
+omelette,omelet
+omelettes,omelets
+optimise,optimize
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+optimises,optimizes
+optimising,optimizing
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+organiser,organizer
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+ostracise,ostracize
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+outmanoeuvre,outmaneuver
+outmanoeuvred,outmaneuvered
+outmanoeuvres,outmaneuvers
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+overemphasise,overemphasize
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+overemphasises,overemphasizes
+overemphasising,overemphasizing
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+paediatric,pediatric
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+paedophiles,pedophiles
+paedophilia,pedophilia
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+parcelled,parceled
+parcelling,parceling
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+pedalled,pedaled
+pedalling,pedaling
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+penalise,penalize
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+personalise,personalize
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+philosophising,philosophizing
+philtre,filter
+philtres,filters
+phoney ,phony
+plagiarise,plagiarize
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+plough,plow
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+ploughman,plowman
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+ploughshare,plowshare
+ploughshares,plowshares
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+practise,practice
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+practising ,practicing
+praesidium,presidium
+praesidiums ,presidiums
+pressurisation,pressurization
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+pressurises,pressurizes
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+pretences,pretenses
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+publicise,publicize
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+romanticise,romanticize
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+satirise,satirize
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+scandalise,scandalize
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+sceptic,skeptic
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+sceptre,scepter
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+sepulchre,sepulcher
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+sermonise,sermonize
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+sermonising,sermonizing
+sheikh ,sheik
+shovelled,shoveled
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+shrivelling,shriveling
+signalise,signalize
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+signalled,signaled
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+smoulder,smolder
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+smoulders,smolders
+snivelled,sniveled
+snivelling,sniveling
+snorkelled,snorkeled
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+snowplough,snowplow
+snowploughs,snowplow
+socialisation,socialization
+socialise,socialize
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+socialising,socializing
+sodomise,sodomize
+sodomised,sodomized
+sodomises,sodomizes
+sodomising,sodomizing
+solemnise,solemnize
+solemnised,solemnized
+solemnises,solemnizes
+solemnising,solemnizing
+sombre,somber
+specialisation,specialization
+specialisations,specializations
+specialise,specialize
+specialised,specialized
+specialises,specializes
+specialising,specializing
+spectre,specter
+spectres,specters
+spiralled,spiraled
+spiralling,spiraling
+splendour,splendor
+splendours,splendors
+squirrelled,squirreled
+squirrelling,squirreling
+stabilisation,stabilization
+stabilise,stabilize
+stabilised,stabilized
+stabiliser,stabilizer
+stabilisers,stabilizers
+stabilises,stabilizes
+stabilising,stabilizing
+standardisation,standardization
+standardise,standardize
+standardised,standardized
+standardises,standardizes
+standardising,standardizing
+stencilled,stenciled
+stencilling,stenciling
+sterilisation,sterilization
+sterilisations,sterilizations
+sterilise,sterilize
+sterilised,sterilized
+steriliser,sterilizer
+sterilisers,sterilizers
+sterilises,sterilizes
+sterilising,sterilizing
+stigmatisation,stigmatization
+stigmatise,stigmatize
+stigmatised,stigmatized
+stigmatises,stigmatizes
+stigmatising,stigmatizing
+storey,story
+storeys,stories
+subsidisation,subsidization
+subsidise,subsidize
+subsidised,subsidized
+subsidiser,subsidizer
+subsidisers,subsidizers
+subsidises,subsidizes
+subsidising,subsidizing
+succour,succor
+succoured,succored
+succouring,succoring
+succours,succors
+sulphate,sulfate
+sulphates,sulfates
+sulphide,sulfide
+sulphides,sulfides
+sulphur,sulfur
+sulphurous,sulfurous
+summarise,summarize
+summarised,summarized
+summarises,summarizes
+summarising,summarizing
+swivelled,swiveled
+swivelling,swiveling
+symbolise,symbolize
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+symbolises,symbolizes
+symbolising,symbolizing
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+sympathiser,sympathizer
+sympathisers,sympathizers
+sympathises,sympathizes
+sympathising,sympathizing
+synchronisation,synchronization
+synchronise,synchronize
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+synchronises,synchronizes
+synchronising,synchronizing
+synthesise,synthesize
+synthesised,synthesized
+synthesiser,synthesizer
+synthesisers,synthesizers
+synthesises,synthesizes
+synthesising,synthesizing
+syphon,siphon
+syphoned,siphoned
+syphoning,siphoning
+syphons,siphons
+systematisation,systematization
+systematise,systematize
+systematised,systematized
+systematises,systematizes
+systematising,systematizing
+tantalise,tantalize
+tantalised,tantalized
+tantalises,tantalizes
+tantalising,tantalizing
+tantalisingly,tantalizingly
+tasselled,tasseled
+technicolour,technicolor
+temporise,temporize
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+temporises,temporizes
+temporising,temporizing
+tenderise,tenderize
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+tenderises,tenderizes
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+terrorise,terrorize
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+terrorises,terrorizes
+terrorising,terrorizing
+theatre,theater
+theatregoer,theatergoer
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+theatres,theaters
+theorise,theorize
+theorised,theorized
+theorises,theorizes
+theorising,theorizing
+tonne,ton
+tonnes,tons
+towelled,toweled
+towelling,toweling
+toxaemia,toxemia
+tranquillise,tranquilize
+tranquillised,tranquilized
+tranquilliser,tranquilizer
+tranquillisers,tranquilizers
+tranquillises,tranquilizes
+tranquillising,tranquilizing
+tranquillity,tranquility
+tranquillize,tranquilize
+tranquillized,tranquilized
+tranquillizer,tranquilizer
+tranquillizers,tranquilizers
+tranquillizes,tranquilizes
+tranquillizing,tranquilizing
+tranquilly,tranquility
+transistorised,transistorized
+traumatise,traumatize
+traumatised,traumatized
+traumatises,traumatizes
+traumatising,traumatizing
+travelled,traveled
+traveller,traveler
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+travelling,traveling
+travelogue,travelog
+travelogues ,travelogs
+trialled,trialed
+trialling,trialing
+tricolour,tricolor
+tricolours,tricolors
+trivialise,trivialize
+trivialised,trivialized
+trivialises,trivializes
+trivialising,trivializing
+tumour,tumor
+tumours,tumors
+tunnelled,tunneled
+tunnelling,tunneling
+tyrannise,tyrannize
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+tyrannises,tyrannizes
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+tyre,tire
+tyres,tires
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+uncivilised,uncivilized
+underutilised,underutilized
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+unfavourable,unfavorable
+unfavourably,unfavorably
+unionisation,unionization
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+unionises,unionizes
+unionising,unionizing
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+unravelled,unraveled
+unravelling,unraveling
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+urbanisation,urbanization
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+urbanises,urbanizes
+urbanising,urbanizing
+utilisable,utilizable
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+vaporisation,vaporization
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+vapour,vapor
+vapours,vapors
+verbalise,verbalize
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+victimisation,victimization
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+victimising,victimizing
+videodisc,videodisk
+videodiscs,videodisks
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+vocalises,vocalizes
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+vulgarisation,vulgarization
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+vulgarised,vulgarized
+vulgarises,vulgarizes
+vulgarising,vulgarizing
+waggon,wagon
+waggons,wagons
+watercolour,watercolor
+watercolours,watercolors
+weaselled,weaseled
+weaselling,weaseling
+westernisation,westernization
+westernise,westernize
+westernised,westernized
+westernises,westernizes
+westernising,westernizing
+womanise,womanize
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+womaniser,womanizer
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+womanises,womanizes
+womanising,womanizing
+woollen,woolen
+woollens,woolens
+woollies,woolies
+woolly,wooly
+worshipped ,worshiped
+worshipping ,worshiping
+worshipper,worshiper
+yodelled,yodeled
+yodelling,yodeling
+yoghourt,yogurt
+yoghourts,yogurts
+yoghurt,yogurt
+yoghurts,yogurts