neurostuff/NiMARE: 0.0.12

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<!-- Release notes generated using configuration in .github/release.yml at main --> This release continues ongoing work on improving memory usage. We have eliminated the memory_limit option in our Estimators in favor of using sparse arrays. We expect to see a corresponding increase in fit times, especially for Monte Carlo FWE correction- however, we plan to address this in future releases. What's Changed 🛠 Breaking Changes - Replace multiprocessing with joblib for parallelization and change n_cores default to 1 by @tsalo in https://github.com/neurostuff/NiMARE/pull/597 - Incorporate joblib into ALESubtraction and fix SCALE docstring by @tsalo in https://github.com/neurostuff/NiMARE/pull/641 - Stop storing MetaResults as attributes of fitted Estimators by @tsalo in https://github.com/neurostuff/NiMARE/pull/657 - Refactor Correctors and remove statsmodels requirement by @tsalo in https://github.com/neurostuff/NiMARE/pull/679 ### 🎉 Exciting New Features - Add FocusCounter diagnostic tool by @tsalo in https://github.com/neurostuff/NiMARE/pull/649 - Support cluster-level Monte Carlo FWE correction in the MKDAChi2 Estimator by @tsalo in https://github.com/neurostuff/NiMARE/pull/650 - Support vfwe_only in CBMAEstimator even when null_method isn't montecarlo by @tsalo in https://github.com/neurostuff/NiMARE/pull/678 - Add warning when coordinates dataset contains both positive and negative z_stats by @JulioAPeraza in https://github.com/neurostuff/NiMARE/pull/699 - Add parameter estimate standard error to IBMA results by @tsalo in https://github.com/neurostuff/NiMARE/pull/691 - Use sparse array in ALE, ALESubtraction, SCALE, KDA, and MKDADensity by @JulioAPeraza in https://github.com/neurostuff/NiMARE/pull/725 ### 🐛 Bug Fixes - Retain updated Estimator in Corrector-generated MetaResults by @tsalo in https://github.com/neurostuff/NiMARE/pull/633 - Do not inherit IBMAEstimator's aggressive_mask from previous Datasets by @tsalo in https://github.com/neurostuff/NiMARE/pull/652 - Use beta maps in PermutedOLS instead of z maps by @tsalo in https://github.com/neurostuff/NiMARE/pull/715 ### Other Changes - Reduce SCALE memory usage by @tsalo in https://github.com/neurostuff/NiMARE/pull/632 - Improve memory management in MKDAChi2 Estimator by @tsalo in https://github.com/neurostuff/NiMARE/pull/638 - Remove Peaks2Maps-related tests by @tsalo in https://github.com/neurostuff/NiMARE/pull/643 - Disable MA map pre-generation in CorrelationDecoder by @tsalo in https://github.com/neurostuff/NiMARE/pull/637 - Switch testing from CircleCI to GitHub Actions by @tsalo in https://github.com/neurostuff/NiMARE/pull/642 - Override unusable methods and improve documentation by @tsalo in https://github.com/neurostuff/NiMARE/pull/645 - Document other meta-analysis tools outside our ecosystem by @tsalo in https://github.com/neurostuff/NiMARE/pull/654 - Reorganize and streamline examples by @tsalo in https://github.com/neurostuff/NiMARE/pull/656 - Convert CBMAEstimator method to function by @tsalo in https://github.com/neurostuff/NiMARE/pull/658 - Add explicit support for Python 3.10 by @tsalo in https://github.com/neurostuff/NiMARE/pull/648 - Use BibTeX citations in documentation by @tsalo in https://github.com/neurostuff/NiMARE/pull/670 - Replace relative imports with absolute ones by @tsalo in https://github.com/neurostuff/NiMARE/pull/674 - Simplify organization of base classes by @tsalo in https://github.com/neurostuff/NiMARE/pull/675 - Note why we don't implement TFCE in NiMARE (currently) by @tsalo in https://github.com/neurostuff/NiMARE/pull/680 - Dropping the memory-mapping option for Estimators and kernel transformers by @JulioAPeraza in https://github.com/neurostuff/NiMARE/pull/681 - Optimize locating coordinates in convert_neurosynth_to_dataset by @ryanhammonds in https://github.com/neurostuff/NiMARE/pull/682 - Reduce memory usage of KernelTransformer.transform and meta.utils.compute_kda_ma by @JulioAPeraza in https://github.com/neurostuff/NiMARE/pull/676 - Generate automatic CHANGELOG from release note and add it to docs by @JulioAPeraza in https://github.com/neurostuff/NiMARE/pull/684 - Add manual changelog to documentation by @tsalo in https://github.com/neurostuff/NiMARE/pull/635 - Automatically update CHANGELOG.md for prereleases as well by @JulioAPeraza in https://github.com/neurostuff/NiMARE/pull/688 - Fix tag-name issue in update-changelog workflow by @JulioAPeraza in https://github.com/neurostuff/NiMARE/pull/689 - Optimize numpy operations in MKDADensity Estimator and (M)KDAKernel by @adelavega in https://github.com/neurostuff/NiMARE/pull/685 - Add PAT to automatically commit release notes to CHANGELOG.md by @JulioAPeraza in https://github.com/neurostuff/NiMARE/pull/695 - Fix CHANGELOG formatting issues by @JulioAPeraza in https://github.com/neurostuff/NiMARE/pull/701 - Add citation information to documentation by @tsalo in https://github.com/neurostuff/NiMARE/pull/712 - Add a glossary page to the documentation by @tsalo in https://github.com/neurostuff/NiMARE/pull/706 - Remove extraneous copy() statements by @jdkent in https://github.com/neurostuff/NiMARE/pull/662 - Add information about maintaining NiMARE to developer's guide by @tsalo in https://github.com/neurostuff/NiMARE/pull/703 - Pin minimum version of pandas by @jdkent in https://github.com/neurostuff/NiMARE/pull/722 New Contributors - @ryanhammonds made their first contribution in https://github.com/neurostuff/NiMARE/pull/682 - @adelavega made their first contribution in https://github.com/neurostuff/NiMARE/pull/685 Full Changelog: https://github.com/neurostuff/NiMARE/compare/0.0.11...0.0.12 The title and description of this software/code correspond with the situation when the software metadata was imported to ACRIS. The most recent version of metadata is available in the original repository.
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Publiceringsår

2022

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Upphovspersoner

Department of Neuroscience and Biomedical Engineering

Adam Kimbler - Upphovsperson

Alejandro De La Vega - Upphovsperson

Alexander Enge - Upphovsperson

Alexandre Pérez - Upphovsperson

Angela R. Laird - Upphovsperson

Dorota Jarecka - Upphovsperson

Dylan N. Nielson - Upphovsperson

Enrico Glerean Orcid -palvelun logo - Upphovsperson

James D. Kent - Upphovsperson

Jean-Baptiste Poline - Upphovsperson

Jessey Wright - Upphovsperson

Julio A. Peraza - Upphovsperson

Julio A. Yanes - Upphovsperson

Katherine L. Bottenhorn - Upphovsperson

Kendra M. Oudyk - Upphovsperson

Krzysztof J. Gorgolewski - Upphovsperson

Murat Bilgel - Upphovsperson

Puck Reeders - Upphovsperson

Simon B. Eickhoff - Upphovsperson

Tal Yarkoni - Upphovsperson

Taylor Salo - Upphovsperson

Thomas E. Nichols - Upphovsperson

Zhen-Qi Liu - Upphovsperson

Auburn University - Medarbetare

Austin-UTexas - Medarbetare

Florida International University - Medarbetare

Massachusetts Institute of Technology - Medarbetare

Max Planck Institute for Human Cognitive and Brain Sciences - Medarbetare

McGill University - Medarbetare

National Institute on Aging - Medarbetare

Stanford University - Medarbetare

University of Iowa - Medarbetare

University of Oxford - Medarbetare

Zenodo - Utgivare

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