neurostuff/NiMARE issues and pull requests

#905 - [MAINT] update workflow and fix example

Pull Request - State: closed - Opened by jdkent about 2 months ago - 1 comment
Labels: maintenance

#904 - [FIX] bump pymare version to fix z values

Pull Request - State: closed - Opened by jdkent about 2 months ago - 4 comments

#903 - Fix the two sided test on IBMA Fishers and Stouffers estimators

Pull Request - State: closed - Opened by JulioAPeraza about 2 months ago - 5 comments
Labels: bug, ibma

#902 - Bump actions/download-artifact from 2 to 4.1.7 in /.github/workflows

Pull Request - State: closed - Opened by dependabot[bot] 2 months ago - 3 comments
Labels: dependencies

#901 - Fix the correlation matrix computation in Stouffers and Reports

Pull Request - State: closed - Opened by JulioAPeraza 3 months ago - 2 comments
Labels: bug

#900 - run benchmarking on estimators

Pull Request - State: closed - Opened by jdkent 3 months ago - 1 comment

#899 - hyphen no longer supported

Pull Request - State: closed - Opened by jdkent 3 months ago - 1 comment

#898 - [ENH] add airspeed velocity benchmark

Pull Request - State: closed - Opened by jdkent 3 months ago - 1 comment

#897 - bump pymare for rounding issue

Pull Request - State: closed - Opened by jdkent 3 months ago - 2 comments
Labels: bug

#896 - Add support for IBMA estimators with t-statistic images in Reports

Pull Request - State: closed - Opened by JulioAPeraza 3 months ago - 2 comments
Labels: bug

#895 - Add t-statistic images as valid targets in ImageTransformer

Pull Request - State: closed - Opened by JulioAPeraza 3 months ago - 2 comments
Labels: enhancement, ibma

#894 - Add Fixed Effects Meta-Analysis with Hedges’ g

Pull Request - State: closed - Opened by JulioAPeraza 3 months ago - 3 comments
Labels: enhancement, ibma

#893 - Update README.md

Pull Request - State: closed - Opened by jdkent 3 months ago - 1 comment

#892 - [REF] neurosynth decode

Pull Request - State: open - Opened by jdkent 4 months ago

#891 - [REF] optimize `get_studies_by_mask`

Pull Request - State: closed - Opened by jdkent 4 months ago - 2 comments

#890 - [MAINT] bump cognitiveatlas version

Pull Request - State: closed - Opened by jdkent 4 months ago - 1 comment

#889 - Compute correlation matrix in signal voxels

Pull Request - State: closed - Opened by JulioAPeraza 5 months ago - 2 comments

#888 - The correlation matrix should be calculated in signal voxels

Issue - State: closed - Opened by JulioAPeraza 5 months ago - 1 comment
Labels: enhancement

#887 - Add support for publication size weighting. General refactoring of IBMA estimators

Pull Request - State: closed - Opened by JulioAPeraza 6 months ago - 1 comment
Labels: enhancement, refactoring, ibma

#886 - matplotlib version 3.9.0 removed get_cmap

Issue - State: closed - Opened by jdkent 6 months ago
Labels: bug

#885 - [FIX] bump matplotlib version and update usage of get_cmap

Pull Request - State: closed - Opened by jdkent 6 months ago - 1 comment

#884 - Add support for the `concordant` mode test in Fisher's and Stouffer's estimators

Pull Request - State: closed - Opened by JulioAPeraza 6 months ago - 6 comments
Labels: enhancement, ibma

#883 - [FIX] update codecov

Pull Request - State: closed - Opened by jdkent 6 months ago - 1 comment

#882 - Add correction for multiple contrasts within a study in Stouffer's IBMA

Pull Request - State: closed - Opened by JulioAPeraza 7 months ago - 3 comments
Labels: enhancement

#881 - [MAINT] Exclude only nilearn 0.10.3

Pull Request - State: closed - Opened by Remi-Gau 7 months ago - 3 comments

#880 - min joblib 1.3.0

Pull Request - State: closed - Opened by jdkent 9 months ago - 1 comment

#879 - running reports with neurostore reference dataset takes a lot of memory

Issue - State: open - Opened by jdkent 9 months ago - 5 comments
Labels: bug

#878 - [FIX] tqdm not displaying on notebooks

Pull Request - State: closed - Opened by jdkent 9 months ago - 2 comments

#877 - [MAINT] limit version of nilearn to 0.10.2

Pull Request - State: closed - Opened by jdkent 9 months ago

#876 - [MAINT] use updated black

Pull Request - State: closed - Opened by jdkent 9 months ago

#875 - black enforces newline after docstring

Issue - State: closed - Opened by jdkent 9 months ago
Labels: bug

#874 - [TST] add tmate session

Pull Request - State: closed - Opened by jdkent 9 months ago

#873 - Update Nilearn API _check_same_fov

Pull Request - State: closed - Opened by adelavega 9 months ago - 2 comments

#872 - nilearn 0.10.3 breaks nimare

Issue - State: closed - Opened by adelavega 9 months ago - 5 comments
Labels: bug

#871 - Optimize ImagesToCoordinates with `Parallel`

Issue - State: open - Opened by JulioAPeraza 9 months ago
Labels: enhancement

#870 - Add continuous correlation decoder examples

Pull Request - State: open - Opened by JulioAPeraza 10 months ago

#869 - [DOCS] Update correlation decoder section & add live running example

Issue - State: open - Opened by adelavega 10 months ago - 5 comments
Labels: enhancement, documentation

#868 - [FIX] fwe docstrings

Pull Request - State: closed - Opened by jdkent 10 months ago - 1 comment

#867 - beta maps in the workflow report

Issue - State: open - Opened by jdkent 10 months ago

#866 - Implement early-stopping rule for Monte Carlo FWE Correction

Issue - State: open - Opened by tsalo 10 months ago
Labels: enhancement

#865 - Clarify FWECorrector arguments

Pull Request - State: closed - Opened by adelavega 10 months ago - 1 comment

#864 - Add advanced plots to IBMA report

Pull Request - State: closed - Opened by JulioAPeraza 10 months ago - 1 comment
Labels: enhancement, ibma

#863 - Fix ridgeline plot in IBMA report

Pull Request - State: closed - Opened by JulioAPeraza 10 months ago - 2 comments
Labels: bug

#862 - Refactor FWECorrection to be space efficient

Issue - State: closed - Opened by adelavega 10 months ago
Labels: enhancement

#861 - [FIX] bump min numpy/seaborn versions

Pull Request - State: closed - Opened by jdkent 10 months ago

#860 - [FIX] do not check id columns for image extensions

Pull Request - State: closed - Opened by jdkent 10 months ago

#859 - Add `sum_across_studies` to kda

Pull Request - State: closed - Opened by adelavega 10 months ago - 6 comments

#858 - Kernalize all

Pull Request - State: closed - Opened by adelavega 10 months ago - 2 comments

#857 - Optimize compute_kda_ma for memory and speed

Pull Request - State: closed - Opened by adelavega 10 months ago - 6 comments

#856 - Disable computation of probabilities by default for MKDAChi2

Pull Request - State: closed - Opened by adelavega 11 months ago - 3 comments

#855 - Disable MKDAChi2 posterior probability outputs by default

Issue - State: closed - Opened by tsalo 11 months ago
Labels: enhancement, breaking-change

#854 - Add DoF map to IBMA report

Pull Request - State: closed - Opened by JulioAPeraza 11 months ago - 1 comment
Labels: enhancement, ibma

#853 - Support Python 3.12

Pull Request - State: closed - Opened by JulioAPeraza 11 months ago - 3 comments
Labels: maintenance

#852 - Add similarity correlation matrix figure to IBMA reports

Pull Request - State: closed - Opened by JulioAPeraza 11 months ago - 6 comments
Labels: enhancement, ibma

#851 - Deprecate `ale_sleuth_workflow` in favor of `CBMAWorkflow` and `PairwiseCBMAWorkflow`

Pull Request - State: closed - Opened by JulioAPeraza 11 months ago - 1 comment
Labels: workflows, deprecation

#850 - Refactor or replace `macm_workflow` with `MACMWorkflow` class

Issue - State: open - Opened by JulioAPeraza 11 months ago
Labels: enhancement, question, refactoring, workflows, deprecation

#849 - Deprecate the `ale_sleuth_workflow` function in favor of `CBMAWorkflow` and `PairwiseCBMAWorkflow`?

Issue - State: closed - Opened by JulioAPeraza 11 months ago
Labels: question, refactoring, workflows, deprecation

#848 - Support liberal mask in IBMA estimators

Pull Request - State: closed - Opened by JulioAPeraza 11 months ago - 8 comments
Labels: enhancement, ibma

#847 - Add similarity-sorted correlation matrix figure to IBMA reports

Issue - State: closed - Opened by tsalo 12 months ago - 2 comments
Labels: enhancement, ibma, impact: low, diagnostics

#846 - `tqdm` is not working with joblib.Parallel (tqdm_joblib)

Issue - State: closed - Opened by JulioAPeraza 12 months ago - 1 comment
Labels: bug

#845 - Implement caching for Estimators and Transformers

Pull Request - State: closed - Opened by JulioAPeraza 12 months ago - 3 comments
Labels: enhancement

#844 - Add caching for nimare.meta algorithms

Issue - State: closed - Opened by JohannesWiesner about 1 year ago
Labels: enhancement

#843 - Fix compatibility of ImageTransformer with Pandas 2.1.2

Pull Request - State: closed - Opened by JulioAPeraza about 1 year ago - 2 comments
Labels: bug

#842 - Compatibility issue of ImageTransformer with Pandas 2.1.2

Issue - State: closed - Opened by JulioAPeraza about 1 year ago
Labels: bug

#841 - Add Conjunction Analysis Workflow

Pull Request - State: closed - Opened by JulioAPeraza about 1 year ago - 1 comment
Labels: enhancement, workflows

#840 - fix an index error in diagnostics.py

Pull Request - State: closed - Opened by yifan0330 about 1 year ago - 3 comments

#839 - [FIX] handle index errors

Pull Request - State: closed - Opened by jdkent about 1 year ago

#838 - focus filter index error

Issue - State: closed - Opened by jdkent about 1 year ago
Labels: bug

#837 - nidm to nimare dataset

Issue - State: open - Opened by Remi-Gau about 1 year ago - 4 comments

#836 - Make `torch` optional

Pull Request - State: closed - Opened by JulioAPeraza about 1 year ago - 1 comment
Labels: enhancement

#835 - add a notebook for comparing cbmr and cbma on neurosynth

Pull Request - State: open - Opened by yifan0330 about 1 year ago - 2 comments

#834 - Add badges and citations for Aperture Neuro article

Pull Request - State: closed - Opened by tsalo about 1 year ago - 2 comments
Labels: documentation

#833 - add a notebook for comparison between CBMR and CBMA on neurosynth dataset

Pull Request - State: closed - Opened by yifan0330 about 1 year ago - 2 comments

#832 - add a notebook for comparison between CBMR and CBMA on neurosynth dataset

Pull Request - State: closed - Opened by yifan0330 about 1 year ago

#831 - [FIX] handle null values in metadata

Pull Request - State: closed - Opened by jdkent about 1 year ago - 1 comment

#830 - Support surface data

Pull Request - State: open - Opened by JulioAPeraza about 1 year ago
Labels: enhancement, effort: high, opinions wanted

#829 - Addresses new RTD configuration file requirements

Pull Request - State: closed - Opened by JulioAPeraza about 1 year ago - 1 comment
Labels: bug, documentation

#828 - Remove pytorch warning message

Pull Request - State: closed - Opened by yifan0330 about 1 year ago - 1 comment

#827 - [FIX] flake8 errors

Pull Request - State: closed - Opened by jdkent about 1 year ago - 1 comment

#826 - Implement caching for nimare.io.convert_neurosynth_to_dataset

Issue - State: open - Opened by JohannesWiesner about 1 year ago - 2 comments
Labels: enhancement

#825 - NoneType error for no group_categories

Issue - State: closed - Opened by yifan0330 about 1 year ago - 1 comment
Labels: bug

#824 - Fix the NeuroLibre badge

Pull Request - State: closed - Opened by tsalo about 1 year ago - 3 comments
Labels: documentation

#823 - Remove `resample` argument from IBMA estimators

Pull Request - State: closed - Opened by JulioAPeraza about 1 year ago - 1 comment
Labels: enhancement, ibma

#822 - TypeError: 'bool' object is not iterable

Issue - State: closed - Opened by JohannesWiesner about 1 year ago - 4 comments
Labels: bug

#821 - [FIX] regular expression for no moderators

Pull Request - State: closed - Opened by jdkent over 1 year ago - 1 comment

#820 - A bug with CBMRInference when input moderators is None

Pull Request - State: closed - Opened by yifan0330 over 1 year ago - 1 comment

#819 - Recruiting GPU not possible (coordinate-based meta-analysis)

Issue - State: open - Opened by MaxKorbmacher over 1 year ago - 1 comment
Labels: bug

#818 - Example notebook

Issue - State: open - Opened by MaxKorbmacher over 1 year ago - 1 comment
Labels: enhancement

#817 - Add IBMAWorkflow

Pull Request - State: closed - Opened by JulioAPeraza over 1 year ago - 3 comments
Labels: enhancement

#816 - Include as a part of the boilerplate what transformation(s) if any was applied to coordinates

Issue - State: open - Opened by jdkent over 1 year ago
Labels: enhancement

#815 - Fix the aspect ratio and size of the heatmap in Reports

Pull Request - State: closed - Opened by JulioAPeraza over 1 year ago - 1 comment
Labels: bug

#814 - plotly graph for reports has large text when report viewed locally

Issue - State: closed - Opened by jdkent over 1 year ago - 2 comments
Labels: bug

#813 - cannot execute run_reports

Issue - State: closed - Opened by jdkent over 1 year ago
Labels: bug

#812 - [FIX] include default.yml as part of nimare package

Pull Request - State: closed - Opened by jdkent over 1 year ago

#811 - [TST] add more realistic test for MKDAChi2

Pull Request - State: closed - Opened by jdkent over 1 year ago - 1 comment

#810 - Combine analyses in Studyset

Pull Request - State: closed - Opened by JulioAPeraza over 1 year ago - 2 comments
Labels: enhancement

#809 - Add Workflow and CBMAWorkflow classes. Support pairwise CBMA workflows

Pull Request - State: closed - Opened by JulioAPeraza over 1 year ago - 4 comments
Labels: enhancement

#808 - [FIX] allow analysis to have null points when converting from nimads to dataset

Pull Request - State: closed - Opened by jdkent over 1 year ago - 1 comment

#807 - Add NiMAREBase features to the Corrector base class

Pull Request - State: closed - Opened by JulioAPeraza over 1 year ago - 1 comment
Labels: enhancement

#806 - torch is a heavy requirement

Issue - State: closed - Opened by jdkent over 1 year ago - 1 comment
Labels: enhancement

GitHub / neurostuff/NiMARE issues and pull requests