[Neuroimaging] [ANN] MNE-Python 0.23

Wed Apr 28 08:48:53 EDT 2021

+1 on congrats !
JB

On Wed, Apr 28, 2021 at 5:59 AM bthirion <bertrand.thirion at inria.fr> wrote:

> Congratluations !
> Bertrand
>
> On 28/04/2021 11:39, Alexandre Gramfort wrote:
>
> Hello everyone,
>
> We are very pleased to announce the new 0.23 release of MNE-Python! 🎈🎈🎈
>
> This release includes 72 pull requests merged as part of our New
> Developers Code Sprint in March, and more than a dozen additional contributions
> from those new developers after the code sprint.
>
> Big thanks to all who participated! 😍🙏👩🏽‍💻
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#A-few-highlights>A few
> highlights <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#General-infos>General
> infos
>
>    - The MNE team has started offering regular fortnightly “office ours” on
>    Discord to answer user questions. The next office hour will take place this
>    Friday at 16:00 UTC. Come say “Hi!” at https://discord.gg/2hF3V4yT9Q
>    - The community has now moved to a new forum to answer users’
>    questions and make announcements (e.g., when office hours will be) at
>    https://mne.discourse.group/.
>    - The documentation at https://mne.tools now features a new theme. We
>    are continuously working to improve layout, usability, and accessibility of
>    our documentation. If you discover anything you don’t like, that just
>    doesn’t work for you, or that might present a barrier to some users, please
>    do reach out to us! We’re looking forward to receiving your feedback.
>
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#Usability>Usability
>
>    - Gone is the 15-character limitation for channel names when writing
>    FIFF files.
>    - Raw, Epochs, and Info objects now have a beautiful tabular
>    representation in Jupyter Notebooks.
>    - Ever wanted to add Annotations to individual channels? This is now
>    possible with the new ch_names parameter.
>    - Annotations can now be exported to a pandas DataFramevia
>    Annotations.to_data_frame().
>    - Interested in summary descriptive statistics for all your channels?
>    Have a look at the new Raw.describe().
>    - Epochs and Evoked now allow you to easily apply transformations to
>    their data using the brand-new apply_function() method.
>    - Epochs metadata can now be generated automatically from events using
>    mne.epochs.make_metadata().
>    - Raw.get_data() now has a units parameter to return data in the
>    desired unit.
>
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#Visualization>Visualization
>
>    - Dark mode! 🦉 Source estimate plots can now detect the operating
>    system theme preferences and will apply a dark theme automatically if the
>    OS is currently in dark mode. Dark mode can also be activated manually via
>    the theme parameter of mne.viz.Brain.
>    - Much improved interactive 3D plots in Jupyter Notebooks. (We’re
>    still trying to get Jupyter Lab to work nicely as well – it currently
>    behaves rather erratically, though!)
>    - The new silhouette parameter of mne.viz.Brain can be used to display
>    sharp edges and to improve perception.
>
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#Source-imaging>Source imaging
>
>    - New method mne.Dipole.to_mni() for more convenient conversion from
>    Dipole.pos to MNI.
>    - We have a new infant template MRI dataset downloader,
>    mne.datasets.fetch_infant_template().
>    - Add digitizer information to mne.io.read_raw_egi().
>    - We now allow reading digitization from files other than *.fif in the
>    coregistration GUI.
>    - We managed to speed up mne.inverse_sparse.tf_mixed_norm() using
>    STFT/ISTFT linearity.
>
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#Data-reading-and-writing>Data
> reading and writing
>
>    - Moving over from EEGLAB? No problem! We’ve added support for reading
>    new (2021) EEGLAB file format.
>    - Moving back to EEGLAB? No problem either! You can now export Raw and
>    Epochs to the EEGLAB format, thanks to the new export() methods and
>    the eeglabio <https://github.com/jackz314/eeglabio> package.
>    - mne.channels.read_custom_montage() got more versatile! It now
>    supports CSV, TSV, and XYZ support formats.
>    - StarStim / enobio NEDF files can now be read via
>    mne.io.read_raw_nedf().
>
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#Channel-types>Channel types
>
>    - There is now a new dbs channel type for deep brain stimulation
>    recordings.
>
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#Notable-API-changes>Notable API
> changes
>
>    - mne.beamformer.tf_dics() has been deprecated
>    - The default of real_filter=False in mne.beamformer.make_dics() will
>    change to True in the next version of MNE-Python.
>    - mne.io.anonymize_info() now also anonymizes the sex and hand fields
>    when keep_his=False.
>    - Evoked objects have gained a new baseline attribute that is
>    automatically assembled based on the baseline of the averaged Epochs.
>    - mne.read_selection() has been deprecated in favor of
>    mne.read_vectorview_selection().
>    - Fitting ICA on baseline-corrected Epochs, and / or applying it on
>    baseline-corrected Epochs or Evoked data will now display a warning.
>
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#Full-changelog>Full changelog
>
> For a full list of improvements and API changes, see:
>
> https://mne.tools/stable/whats_new.html#version-0-23
>
> Find the full documentation at https://mne.tools/
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#Installing-the-new-release>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
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#Feedback>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
>
> We hope you will enjoy the new features and many, many small improvements
> we have added, and are looking forward to receiving your feedback.
>
> Stay safe and take care!
>
> The MNE-Python developers
> <https://hackmd.io/vp4CQoASQCCfhUQFW-lUXQ#Contributors>Contributors
>
> MNE-Python is a community-driven project. We are always very happy to
> welcome new contributors of code and documentation! 41 people contributed
> to this release, and 11 of them contributed for the very first time – thank
> you so much for your time and effort, we truly appreciate it!
>
> This is the list of contributors in alphabetical order (first-time
> contributors marked with a “+”):
>
>    - Adam Li
>    - Alex Rockhill
>    - Alexandre Gramfort
>    - Ana Radanovic
>    - Andres Rodriguez +
>    - Anna Padee +
>    - Apoorva Karekal +
>    - Britta Westner
>    - Catalina Magalvan
>    - Christian Brodbeck
>    - Christian Mista
>    - Christian O’Reilly
>    - Christina Zhao
>    - Christopher J. Bailey
>    - Clemens Brunner
>    - Cora Kim +
>    - Daniel McCloy
>    - Denis A. Engemann
>    - Dominik Welke +
>    - Eduard Ort
>    - Enrico Varano +
>    - Eric Larson
>    - Erica Peterson +
>    - Evgenii Kalenkovich
>    - Felix Klotzsche +
>    - Giorgio Marinato
>    - Guillaume Favelier
>    - Jack Zhang+
>    - Jean-Remi King
>    - Johann Benerradi
>    - Joris Van den Bossche
>    - Judy D Zhu +
>    - Liberty Hamilton
>    - Luke Bloy
>    - Maggie Clarke +
>    - Mainak Jas
>    - Manorama Kadwani
>    - Marijn van Vliet
>    - Martin Schulz
>    - Matt Sanderson +
>    - Matteo Anelli +
>    - Nicolas Gensollen
>    - Ram Pari +
>    - Richard Höchenberger
>    - Richard Koehler +
>    - Robert Luke
>    - Rotem Falach +
>    - Sebastien Treguer
>    - Silvia Cotroneo +
>    - Stefan Appelhoff
>    - Steven Bierer
>    - Sumalyo Datta +
>    - Timon Merk
>    - Tristan Stenner
>    - Valerii Chirkov+
>    - Victoria Peterson
>    - Yu-Han Luo
>    - Zhi Zhang +
>
>
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