[Neuroimaging] [ANN] MNE 1.3 Release

Fri Jan 6 12:13:21 EST 2023

A good start for 2023 :) !
JB

On Fri, Jan 6, 2023 at 12:12 PM Alexandre Gramfort <
alexandre.gramfort at inria.fr> wrote:

> Hello everyone,
>
> Just before xmas we released MNE-Python 1.3! 🎉 🎁 🎅
>
> Please find a detailed list of changes and contributors below.
>
> All the best,
>
> Your MNE Team.
>
>
> A few highlights
>
> ============
>
>
>    -
>
>    Mixed, cortical + discrete source spaces with fixed orientations are
>    now allowed. (#11241
>    <https://github.com/mne-tools/mne-python/issues/11241> by Jevri Hanna
>    <https://github.com/jshanna100>)
>    -
>
>    Add support for image_format='webp' to mne.Report
>    <https://mne.tools/stable/generated/mne.Report.html#mne.Report> when
>    using Matplotlib 3.6+, which can reduce file sizes by up to 50% compared to
>    'png'. The new default image_format='auto' will automatically use this
>    format if it’s available on the system (#11359
>    <https://github.com/mne-tools/mne-python/issues/11359> by Eric Larson
>    <http://larsoner.com/>)
>    -
>
>    Add mne.beamformer.apply_dics_tfr_epochs()
>    <https://mne.tools/stable/generated/mne.beamformer.apply_dics_tfr_epochs.html#mne.beamformer.apply_dics_tfr_epochs>
>    to apply a DICS beamformer to time-frequency resolved epochs (#11096
>    <https://github.com/mne-tools/mne-python/issues/11096> by Alex Rockhill
>    <https://github.com/alexrockhill/>)
>    -
>
>    Check whether head radius (estimated from channel positions) is
>    correct when reading EEGLAB data with read_raw_eeglab()
>    <https://mne.tools/stable/generated/mne.io.read_raw_eeglab.html#mne.io.read_raw_eeglab>
>    and read_epochs_eeglab()
>    <https://mne.tools/stable/generated/mne.read_epochs_eeglab.html#mne.read_epochs_eeglab>.
>    If head radius is not within likely values, warn informing about possible
>    units mismatch and the new montage_units argument (#11283
>    <https://github.com/mne-tools/mne-python/issues/11283> by Mikołaj
>    Magnuski <https://github.com/mmagnuski>).
>    -
>
>    Add support for a callable passed in combine for
>    mne.time_frequency.AverageTFR.plot
>    <https://mne.tools/stable/generated/mne.time_frequency.AverageTFR.html#mne.time_frequency.AverageTFR.plot>
>    and mne.time_frequency.AverageTFR.plot_joint
>    <https://mne.tools/stable/generated/mne.time_frequency.AverageTFR.html#mne.time_frequency.AverageTFR.plot_joint>
>    (#11329 <https://github.com/mne-tools/mne-python/issues/11329> by Mathieu
>    Scheltienne <https://github.com/mscheltienne>)
>
>
>
> Notable API changes
>
> ================
>
> We have changed a few things that will require you to adjust your code.
>
>
>    -
>
>    In mne.time_frequency.dpss_windows()
>    <https://mne.tools/stable/generated/mne.time_frequency.dpss_windows.html#mne.time_frequency.dpss_windows>,
>    interpolating is deprecated (nowadays SciPy’s computations are fast enough
>    for large N without interpolation). This affects parameters interp_from
>    and interp_kind. Two new parameters of the underlying SciPy dpss()
>    <https://scipy.github.io/devdocs/reference/generated/scipy.signal.windows.dpss.html#scipy.signal.windows.dpss>
>    function are also exposed: sym (for choosing symmetric vs. periodic
>    windows) and norm (window normalization method). (#11293
>    <https://github.com/mne-tools/mne-python/issues/11293> by Daniel McCloy
>    <http://dan.mccloy.info/>)
>    -
>
>    In mne.decoding.CSP.plot_patterns()
>    <https://mne.tools/stable/generated/mne.decoding.CSP.html#mne.decoding.CSP.plot_patterns>,
>    mne.decoding.CSP.plot_filters()
>    <https://mne.tools/stable/generated/mne.decoding.CSP.html#mne.decoding.CSP.plot_filters>,
>    mne.preprocessing.ICA.plot_components()
>    <https://mne.tools/stable/generated/mne.preprocessing.ICA.html#mne.preprocessing.ICA.plot_components>,
>    and mne.viz.plot_ica_components()
>    <https://mne.tools/stable/generated/mne.viz.plot_ica_components.html#mne.viz.plot_ica_components>,
>    the parameters vmin and vmax are deprecated in favor of vlim, for
>    consistency with other topomap-plotting functions and methods (#11371
>    <https://github.com/mne-tools/mne-python/issues/11371> by Daniel McCloy
>    <http://dan.mccloy.info/>)
>    -
>
>    In mne.decoding.CSP.plot_patterns()
>    <https://mne.tools/stable/generated/mne.decoding.CSP.html#mne.decoding.CSP.plot_patterns>
>    and mne.decoding.CSP.plot_filters()
>    <https://mne.tools/stable/generated/mne.decoding.CSP.html#mne.decoding.CSP.plot_filters>
>    the titleparameter is deprecated and will be removed in version 1.4 (
>    #11371 <https://github.com/mne-tools/mne-python/issues/11371> by Daniel
>    McCloy <http://dan.mccloy.info/>)
>    -
>
>    The APIs of mne.preprocessing.ICA.plot_components()
>    <https://mne.tools/stable/generated/mne.preprocessing.ICA.html#mne.preprocessing.ICA.plot_components>
>    and mne.viz.plot_ica_components()
>    <https://mne.tools/stable/generated/mne.viz.plot_ica_components.html#mne.viz.plot_ica_components>gained
>    new parameters show_names, extrapolate, border, size, cnorm, cbar_fmt,
>    axes, nrows, ncols, for consistency with other topomap-plotting
>    functions and methods (#11371
>    <https://github.com/mne-tools/mne-python/issues/11371> by Daniel McCloy
>    <http://dan.mccloy.info/>)
>    -
>
>    The APIs of mne.decoding.CSP.plot_patterns()
>    <https://mne.tools/stable/generated/mne.decoding.CSP.html#mne.decoding.CSP.plot_patterns>
>    and mne.decoding.CSP.plot_filters()
>    <https://mne.tools/stable/generated/mne.decoding.CSP.html#mne.decoding.CSP.plot_filters>gained
>    new parameters extrapolate, border, cnorm, axes, nrows, ncols, for
>    consistency with other topomap-plotting functions and methods (#11371
>    <https://github.com/mne-tools/mne-python/issues/11371> by Daniel McCloy
>    <http://dan.mccloy.info/>)
>
>
>
> Full list of API changes:
>
> https://mne.tools/stable/whats_new.html#api-changes
>
>
> Full changelog
>
> ===========
>
> For a full list of improvements and API changes, see:
>
> https://mne.tools/stable/whats_new.html
>
> Find the full documentation at https://mne.tools/
> <https://mne.tools/stable/index.html>
>
> Installing the new release
>
> ===================
>
> Since quite a few things – including dependencies – have changed, we
> recommend creating a new environment with a “fresh” installation. Please
> follow the installation instructions on our website:
>
> https://mne.tools/stable/install/mne_python.html
>
> Feedback
>
> ========
>
> As usual, we welcome your bug reports, feature requests, critiques, and
> contributions. Development takes place on GitHub. If you would like to
> contribute, star ⭐ the project, or just take a peek at the code, visit
> https://github.com/mne-tools/mne-python.
>
> You may follow us on Twitter https://twitter.com/mne_news and on mastodon
> https://fosstodon.org/@mne
>
> We hope you will enjoy the new features and many, many small improvements
> we have added, and are looking forward to receiving your feedback.
>
> The MNE-Python developers
>
>
> Contributors
>
> ==========
>
> MNE-Python is a community-driven project. We are always very happy to
> welcome new contributors of code and documentation! 29 people contributed
> to this release – and 13 were first-timers! Thank you all so very much for
> your time and effort, we truly appreciate it!
>
> Release contributors (+ are first time contributors):
>
>
>    -
>
>    Alex Rockhill
>    -
>
>    Alexandre Gramfort
>    -
>
>    Britta Westner
>    -
>
>    Carlos de la Torre+
>    -
>
>    Daniel Hasegan+
>    -
>
>    Daniel McCloy
>    -
>
>    Dinara Issagaliyeva+
>    -
>
>    Enzo Altamiranda+
>    -
>
>    Eric Brayet+
>    -
>
>    Eric Larson
>    -
>
>    Erkka Heinila
>    -
>
>    Felix Klotzsche
>    -
>
>    Hakimeh Aslsardroud+
>    -
>
>    Jennifer Behnke+
>    -
>
>    Jevri Hanna
>    -
>
>    Lukas Hecker
>    -
>
>    Mark Alexander Henney+
>    -
>
>    Mathieu Scheltienne
>    -
>
>    Mauricio Cespedes+
>    -
>
>    Mikołaj Magnuski
>    -
>
>    Moritz Gerster
>    -
>
>    Omer Shubi+
>    -
>
>    Pavel Navratil+
>    -
>
>    Richard Höchenberger
>    -
>
>    Santeri Ruuskanen+
>    -
>
>    Stefan Appelhoff
>    -
>
>    Timon Merk
>    -
>
>    Tom Ma+
>    -
>
>    Toomas Erik Anijärv+
>
>
>
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