v0.11.rst

Version 0.11 (2015-12-24)

Changelog

• Maxwell filtering (SSS) implemented in :func:`mne.preprocessing.maxwell_filter` by `Mark Wronkiewicz`_ as part of Google Summer of Code, with help from `Samu Taulu`_, `Jukka Nenonen`_, and `Jussi Nurminen`_. Our implementation includes support for:
  • Fine calibration
  • Cross-talk correction
  • Temporal SSS (tSSS)
  • Head position translation
  • Internal component regularization
• Compensation for movements using Maxwell filtering on epoched data in :func:`mne.epochs.average_movements` by `Eric Larson`_ and `Samu Taulu`_
• Add reader for Nicolet files in :func:`mne.io.read_raw_nicolet` by `Jaakko Leppakangas`_
• Add FIFF persistence for ICA labels by `Denis Engemann`_
• Display ICA labels in :func:`mne.viz.plot_ica_scores` and :func:`mne.viz.plot_ica_sources` (for evoked objects) by `Denis Engemann`_
• Plot spatially color coded lines in :func:`mne.Evoked.plot` by `Jona Sassenhagen`_ and `Jaakko Leppakangas`_
• Add reader for CTF data in :func:`mne.io.read_raw_ctf` by `Eric Larson`_
• Add support for Brainvision v2 in :func:`mne.io.read_raw_brainvision` by `Teon Brooks`_
• Improve speed of generalization across time mne.decoding.GeneralizationAcrossTime decoding up to a factor of seven by `Jean-Rémi King`_ and `Federico Raimondo`_ and `Denis Engemann`_.
• Add the explained variance for each principal component, explained_var, key to the :class:`mne.Projection` by `Teon Brooks`_
• Added methods mne.Epochs.add_eeg_average_proj, mne.io.Raw.add_eeg_average_proj, and mne.Evoked.add_eeg_average_proj to add an average EEG reference.
• Add reader for EEGLAB data in :func:`mne.io.read_raw_eeglab` and :func:`mne.read_epochs_eeglab` by `Mainak Jas`_

BUG

• Fix bug that prevented homogeneous bem surfaces to be displayed in HTML reports by `Denis Engemann`_
• Added safeguards against None and negative values in reject and flat parameters in :class:`mne.Epochs` by `Eric Larson`_
• Fix train and test time window-length in mne.decoding.GeneralizationAcrossTime by `Jean-Rémi King`_
• Added lower bound in :func:`mne.stats.linear_regression` on p-values p_val (and resulting mlog10_p_val) using double floating point arithmetic limits by `Eric Larson`_
• Fix channel name pick in :func:`mne.Evoked.get_peak` method by `Alex Gramfort`_
• Fix drop percentages to take into account ignore option in :func:`mne.viz.plot_drop_log` and :func:`mne.Epochs.plot_drop_log` by `Eric Larson`_.
• :class:`mne.EpochsArray` no longer has an average EEG reference silently added (but not applied to the data) by default. Use mne.EpochsArray.add_eeg_ref to properly add one.
• Fix :func:`mne.io.read_raw_ctf` to read n_samp_tot instead of n_samp by `Jaakko Leppakangas`_

API

• :func:`mne.io.read_raw_brainvision` now has event_id argument to assign non-standard trigger events to a trigger value by `Teon Brooks`_
• :func:`mne.read_epochs` now has add_eeg_ref=False by default, since average EEG reference can be added before writing or after reading using the method mne.Epochs.add_eeg_ref.
• :class:`mne.EpochsArray` no longer has an average EEG reference silently added (but not applied to the data) by default. Use mne.EpochsArray.add_eeg_average_proj to properly add one.

Authors

The committer list for this release is the following (preceded by number of commits):

• 171 Eric Larson
• 117 Jaakko Leppakangas
• 58 Jona Sassenhagen
• 52 Mainak Jas
• 46 Alexandre Gramfort
• 33 Denis A. Engemann
• 28 Teon Brooks
• 24 Clemens Brunner
• 23 Christian Brodbeck
• 15 Mark Wronkiewicz
• 10 Jean-Rémi King
• 5 Marijn van Vliet
• 3 Fede Raimondo
• 2 Alexander Rudiuk
• 2 emilyps14
• 2 lennyvarghese
• 1 Marian Dovgialo