Ecosyste.ms: Issues

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GitHub / sappelhoff/pyprep issues and pull requests

#160 - Turn matprep submodule into a workflow run from this repository

Issue - State: open - Opened by sappelhoff 3 months ago
Labels: Matlab PREP, maintenance

#159 - Make `ransac.find_bad_by_ransac` private

Issue - State: open - Opened by sappelhoff 3 months ago - 1 comment
Labels: API, maintenance

#158 - Make the entire `Reference` class private

Issue - State: open - Opened by sappelhoff 3 months ago - 1 comment
Labels: API, maintenance

#157 - remove dead code from fit method

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

#155 - try to reduce _mad usage fully

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

#154 - Replaced deprecated `pick_types` with `raw.pick`

Pull Request - State: closed - Opened by Ayush-Devs 3 months ago - 3 comments

#153 - implemented MAD using scipy

Pull Request - State: closed - Opened by Ayush-Devs 3 months ago - 7 comments

#152 - implemented MAD using scipy

Pull Request - State: closed - Opened by Ayush-Devs 3 months ago

#151 - Move from `pick_types` to `inst.pick`

Issue - State: open - Opened by sappelhoff 4 months ago - 5 comments
Labels: maintenance

#150 - Move towards `np.random.default_rng`

Issue - State: open - Opened by sappelhoff 4 months ago
Labels: maintenance

#149 - We should replace our own implementation of MAD by the one now available in scipy

Issue - State: closed - Opened by sappelhoff 4 months ago
Labels: good first issue, refactor

#148 - Fixes for Numpy 2

Pull Request - State: closed - Opened by sappelhoff 5 months ago - 3 comments

#147 - CI: Fixes needed for Numpy 2.0

Issue - State: closed - Opened by sappelhoff 5 months ago

#146 - add channels in raw.info['bads'] to unusable channels in Reference class

Issue - State: closed - Opened by john-veillette 6 months ago - 5 comments
Labels: enhancement

#145 - Add bad_by_PSD()

Pull Request - State: open - Opened by nabilalibou 8 months ago - 1 comment

#144 - ADD flat_threshold argument in find_bad_by_nan_flat method from NoisyChannels

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

#142 - Possible to add an argument in find_bad_by_nan_flat() to change FLAT_THRESHOLD ?

Issue - State: closed - Opened by nabilalibou 10 months ago - 2 comments
Labels: enhancement

#141 - Bump actions/cache from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago - 1 comment
Labels: dependencies, github_actions

#140 - Bump codecov/codecov-action from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 10 months ago
Labels: dependencies, github_actions

#139 - Bump actions/upload-artifact from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] 11 months ago - 2 comments
Labels: dependencies, github_actions

#138 - Bump actions/setup-python from 4 to 5

Pull Request - State: closed - Opened by dependabot[bot] 11 months ago - 1 comment
Labels: dependencies, github_actions

#137 - DOC: clarify ref_chs vs reref_chs

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

#136 - New release?

Issue - State: closed - Opened by hoechenberger about 1 year ago - 4 comments

#135 - How to include the prep output in my preprocessing pipeline?

Issue - State: closed - Opened by m4sp3 about 1 year ago - 1 comment

#134 - Bump actions/checkout from 3 to 4

Pull Request - State: closed - Opened by dependabot[bot] about 1 year ago - 1 comment
Labels: dependencies, github_actions

#133 - [Feature suggestion] Allow for relevant annotation selection during processing.

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

#132 - maint: bump versions

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

#131 - Documentation for Noisy Channels Algorithms' stand-alone use

Issue - State: open - Opened by yjmantilla almost 2 years ago - 1 comment
Labels: documentation/example

#130 - Add check for channel positions

Pull Request - State: closed - Opened by sappelhoff about 2 years ago

#129 - find_all_bads throws inf/nan error after filtering/detrending?

Issue - State: closed - Opened by sunshineinsandiego about 2 years ago - 12 comments

#128 - use get_data instead of ._data

Pull Request - State: closed - Opened by sappelhoff about 2 years ago - 4 comments

#127 - Issue with RawBrainVision

Issue - State: closed - Opened by Sam54000 about 2 years ago - 2 comments

#126 - Question: using pyprep.NoisyChannels on numpy arrays

Issue - State: closed - Opened by sunshineinsandiego about 2 years ago - 1 comment

#125 - Computation of window size based on cutoff frequency in local detrend method

Issue - State: open - Opened by danibene about 2 years ago - 1 comment
Labels: Matlab PREP

#124 - update issue/pr templates

Issue - State: closed - Opened by sappelhoff over 2 years ago - 1 comment

#123 - migrate from `.zenodo.json` to `CITATION.cff`

Issue - State: closed - Opened by sappelhoff over 2 years ago - 1 comment

#122 - Bump actions/setup-python from 2 to 4

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#121 - Bump codecov/codecov-action from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#120 - Bump actions/checkout from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#119 - Bump actions/upload-artifact from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#118 - Bump actions/cache from 2 to 3

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#117 - convert chn labels from list to array

Pull Request - State: closed - Opened by OleBialas over 2 years ago - 5 comments

#116 - List of channel names causes TypeError in find_bad_by_ransac

Issue - State: closed - Opened by OleBialas over 2 years ago - 2 comments
Labels: bug

#115 - ensure raw is loaded when pyprep is used

Pull Request - State: closed - Opened by sappelhoff over 2 years ago

#114 - MNE-Python 1.0 fixes

Pull Request - State: closed - Opened by sappelhoff over 2 years ago - 2 comments

#112 - MRG: Add mne logger

Pull Request - State: closed - Opened by mscheltienne over 2 years ago - 5 comments

#111 - Passing a custom montage to the PrepPipeline(raw, montage=?)?

Issue - State: closed - Opened by neerajww almost 3 years ago - 5 comments

#110 - Improve documentation for PyPREP/MatPREP highpass differences

Pull Request - State: closed - Opened by a-hurst almost 3 years ago - 6 comments

#109 - pyprep.utils._filter_design throws error for large sampling rates

Issue - State: open - Opened by john-veillette almost 3 years ago - 4 comments
Labels: bug

#108 - Add a "reject_by_annotation" parameter for finding bad channels

Issue - State: open - Opened by sappelhoff almost 3 years ago - 1 comment
Labels: enhancement

#107 - filt vs filtfilt (MATLAB implementation)

Issue - State: closed - Opened by sappelhoff about 3 years ago

#106 - Make pyprep load MNE raw data for object, if not already loaded

Issue - State: closed - Opened by SebastianSpeer about 3 years ago - 3 comments

#105 - Use the MNE logger to set the verbosity

Issue - State: closed - Opened by mscheltienne about 3 years ago - 6 comments

#104 - add flake8 to pre.commit-config

Pull Request - State: closed - Opened by joDancker over 3 years ago - 2 comments

#103 - Adding flake8 to pre-commit-config

Issue - State: closed - Opened by joDancker over 3 years ago

#102 - Always keep EEG data in Volts instead of converting to mV

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 2 comments

#101 - Release 0.4

Issue - State: closed - Opened by sappelhoff over 3 years ago - 4 comments

#100 - Strange PyPrep/Ransac outputs

Issue - State: closed - Opened by golnousha over 3 years ago - 1 comment

#99 - [WIP] Split PrepPipeline into separate methods, make final interpolation optional

Pull Request - State: open - Opened by a-hurst over 3 years ago - 8 comments

#98 - Real-world benchmarking for (Py)PREP

Issue - State: open - Opened by a-hurst over 3 years ago
Labels: enhancement

#97 - Bad-by-dropout channels sometimes ignored during Reference

Issue - State: open - Opened by a-hurst over 3 years ago

#96 - Implement EEGLAB-style interpolation in Reference for matlab_strict

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 6 comments

#95 - Improved API for PREP configuration

Issue - State: open - Opened by a-hurst over 3 years ago - 6 comments
Labels: API, refactor

#94 - Weird handling of initial bad-by-SNR channels during robust referencing

Issue - State: open - Opened by a-hurst over 3 years ago - 1 comment

#93 - Make noisy channel exclusion during Reference compatible with MATLAB PREP

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 6 comments

#92 - Ensure all reference channels are used during final average referencing

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 3 comments

#91 - PyPREP interpolates more channels than MATLAB PREP during re-referencing

Issue - State: closed - Opened by a-hurst over 3 years ago - 3 comments

#90 - PyPREP excludes interpolated NaN/flat/low-SNR channels from average referencing

Issue - State: closed - Opened by a-hurst over 3 years ago
Labels: bug

#89 - Use identical RNG state across RANSAC runs when matlab_strict enabled

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 3 comments

#88 - Refactor & improved documentation of NoisyChannels

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 2 comments

#87 - fill up .zenodo.json before Release

Issue - State: closed - Opened by sappelhoff over 3 years ago - 11 comments
Labels: documentation/example

#86 - Fix large performance regression in _mat_quantile

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 3 comments

#85 - CI: enforce black style

Pull Request - State: closed - Opened by sappelhoff over 3 years ago - 3 comments

#84 - Refactor of NoisyChannels tests and split into separate methods

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 3 comments

#83 - PREP can't always flag low amplitude channels as bad-by-deviation

Issue - State: open - Opened by a-hurst over 3 years ago - 5 comments

#82 - Adaptive line noise removal differs between PyPREP and Matlab PREP

Issue - State: open - Opened by a-hurst over 3 years ago - 6 comments
Labels: MNE-Python

#81 - Fix handling of channels with dropouts (intermittent flat regions) within NoisyChannels

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 2 comments

#80 - Dropout channel detection broken in PyPREP

Issue - State: closed - Opened by a-hurst over 3 years ago - 3 comments

#79 - Add initial tests for removeTrend & NoisyChannels

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 5 comments

#78 - Change initial re-referencing state in Reference to match Matlab PREP

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 3 comments

#77 - Interpolation of bad channels differs numerically between PyPREP and MatPREP

Issue - State: closed - Opened by a-hurst over 3 years ago - 10 comments

#76 - PyPREP starts re-referencing with more 'bad' channels than Matlab PREP

Issue - State: closed - Opened by a-hurst over 3 years ago - 2 comments

#75 - First-pass average referencing differs between PyPREP and Matlab PREP

Issue - State: closed - Opened by a-hurst over 3 years ago - 2 comments

#74 - RANSAC random seeds work differently in PyPREP than in MATLAB PREP

Issue - State: closed - Opened by a-hurst over 3 years ago - 8 comments

#73 - Extend PrepPipeline to allow performing PREP in stages

Issue - State: open - Opened by a-hurst over 3 years ago - 11 comments

#72 - Skip RANSAC predictions for channels already confirmed as bad

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 1 comment

#71 - Make removeTrend output identical to MATLAB PREP

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 10 comments

#70 - Add matlab_strict API for matching MATLAB PREP's correlations and medians during RANSAC

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 7 comments

#69 - RANSAC docstring improvements & related cleanup

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 2 comments

#68 - Retain detailed info about calculations during NoisyChannels

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 1 comment

#67 - Fix RANSAC-breaking bug in RANSAC correlation window chunking code

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 2 comments

#66 - Add window-wise RANSAC to reduce RAM requirements

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 17 comments

#65 - RANSAC correlations (and logic) differ between PyPREP and MATLAB PREP

Issue - State: closed - Opened by a-hurst over 3 years ago - 16 comments

#64 - Retain HF noise channels during RANSAC when not bad by any other metric

Pull Request - State: closed - Opened by a-hurst over 3 years ago

#63 - PyPREP excludes more channels from RANSAC than MATLAB PREP

Issue - State: closed - Opened by a-hurst over 3 years ago - 4 comments

#62 - Make PyPREP's random channel picks match MATLAB PREP's for the same random seeds

Pull Request - State: closed - Opened by a-hurst over 3 years ago - 3 comments

#61 - RANSAC channel picks differ between MATLAB PREP and PyPREP using the same seed

Issue - State: closed - Opened by a-hurst over 3 years ago - 7 comments