--- a +++ b/doc/changes/v0.10.rst @@ -0,0 +1,148 @@ +.. _changes_0_10: + +Version 0.10 (2015-10-26) +------------------------- + +Changelog +~~~~~~~~~ + +- Add support for generalized M-way repeated measures ANOVA for fully balanced designs with :func:`mne.stats.f_mway_rm` by `Denis Engemann`_ + +- Add epochs browser to interactively view and manipulate epochs with :func:`mne.viz.plot_epochs` by `Jaakko Leppakangas`_ + +- Speed up TF-MxNE inverse solver with block coordinate descent by `Daniel Strohmeier`_ and `Yousra Bekhti`_ + +- Speed up zero-phase overlap-add (default) filtering by a factor of up to 2 using linearity by `Ross Maddox`_ and `Eric Larson`_ + +- Add support for scaling and adjusting the number of channels/time per view by `Jaakko Leppakangas`_ + +- Add support to toggle the show/hide state of all sections with a single keypress ('t') in :class:`mne.Report` by `Mainak Jas`_ + +- Add support for BEM model creation :func:`mne.make_bem_model` by `Eric Larson`_ + +- Add support for BEM solution computation :func:`mne.make_bem_solution` by `Eric Larson`_ + +- Add ICA plotters for raw and epoch components by `Jaakko Leppakangas`_ + +- Add new object ``mne.decoding.TimeDecoding`` for decoding sensors' evoked response across time by `Jean-Rémi King`_ + +- Add command ``mne freeview_bem_surfaces`` to quickly check BEM surfaces with Freeview by `Alex Gramfort`_. + +- Add support for splitting epochs into multiple files in :func:`mne.Epochs.save` by `Mainak Jas`_ and `Alex Gramfort`_ + +- Add support for jointly resampling a raw object and event matrix to avoid issues with resampling status channels by `Marijn van Vliet`_ + +- Add new method :class:`mne.preprocessing.Xdawn` for denoising and decoding of ERP/ERF by `Alexandre Barachant`_ + +- Add support for plotting patterns/filters in :class:`mne.decoding.CSP` and :class:`mne.decoding.LinearModel` by `Romain Trachel`_ + +- Add new object :class:`mne.decoding.LinearModel` for decoding M/EEG data and interpreting coefficients of linear models with patterns attribute by `Romain Trachel`_ and `Alex Gramfort`_ + +- Add support to append new channels to an object from a list of other objects by `Chris Holdgraf`_ + +- Add interactive plotting of topomap from time-frequency representation by `Jaakko Leppakangas`_ + +- Add ``plot_topo`` method to ``Evoked`` object by `Jaakko Leppakangas`_ + +- Add fetcher :mod:`mne.datasets.brainstorm <mne.datasets>` for datasets used by Brainstorm in their tutorials by `Mainak Jas`_ + +- Add interactive plotting of single trials by right clicking on channel name in epochs browser by `Jaakko Leppakangas`_ + +- New logos and logo generation script by `Daniel McCloy`_ + +- Add ability to plot topomap with a "skirt" (channels outside of the head circle) by `Marijn van Vliet`_ + +- Add multiple options to ICA infomax and extended infomax algorithms (number of subgaussian components, computation of bias, iteration status printing), enabling equivalent computations to those performed by EEGLAB by `Jair Montoya Martinez`_ + +- Add :func:`mne.Epochs.apply_baseline` method to ``Epochs`` objects by `Teon Brooks`_ + +- Add ``preload`` argument to :func:`mne.read_epochs` to enable on-demand reads from disk by `Eric Larson`_ + +- Big rewrite of simulation module by `Yousra Bekhti`_, `Mark Wronkiewicz`_, `Eric Larson`_ and `Alex Gramfort`_. Allows to simulate raw with artifacts (ECG, EOG) and evoked data, exploiting the forward solution. See :func:`mne.simulation.simulate_raw`, :func:`mne.simulation.simulate_evoked` and :func:`mne.simulation.simulate_sparse_stc` + +- Add :func:`mne.Epochs.load_data` method to :class:`mne.Epochs` by `Teon Brooks`_ + +- Add support for drawing topomaps by selecting an area in :func:`mne.Evoked.plot` by `Jaakko Leppakangas`_ + +- Add support for finding peaks in evoked data in :func:`mne.Evoked.plot_topomap` by `Jona Sassenhagen`_ and `Jaakko Leppakangas`_ + +- Add source space morphing in :func:`morph_source_spaces` and :func:`SourceEstimate.to_original_src` by `Eric Larson`_ and `Denis Engemann`_ + +- Adapt ``corrmap`` function (Viola et al. 2009) to semi-automatically detect similar ICs across data sets by `Jona Sassenhagen`_ and `Denis Engemann`_ and `Eric Larson`_ + +- Clarify docstring for :class:`mne.preprocessing.ICA` by `jeythekey`_ + +- New ``mne flash_bem`` command to compute BEM surfaces from Flash MRI images by `Lorenzo Desantis`_, `Alex Gramfort`_ and `Eric Larson`_. See :func:`mne.bem.make_flash_bem`. + +- New gfp parameter in :func:`mne.Evoked.plot` method to display Global Field Power (GFP) by `Eric Larson`_. + +- Add ``mne.Report.add_slider_to_section`` methods to :class:`mne.Report` by `Teon Brooks`_ + +BUG +~~~ + +- Fix ``mne.io.add_reference_channels`` not setting ``info[nchan]`` correctly by `Federico Raimondo`_ + +- Fix ``mne.stats.bonferroni_correction`` reject mask output to use corrected p-values by `Denis Engemann`_ + +- Fix FFT filter artifacts when using short windows in overlap-add by `Eric Larson`_ + +- Fix picking channels from forward operator could return a channel ordering different from ``info['chs']`` by `Chris Bailey`_ + +- Fix dropping of events after downsampling stim channels by `Marijn van Vliet`_ + +- Fix scaling in ``mne.viz.utils._setup_vmin_vmax`` by `Jaakko Leppakangas`_ + +- Fix order of component selection in :class:`mne.decoding.CSP` by `Clemens Brunner`_ + +API +~~~ + +- Rename and deprecate ``mne.viz.plot_topo`` for ``mne.viz.plot_evoked_topo`` by `Jaakko Leppakangas`_ + +- Deprecated ``mne.decoding.transformer.ConcatenateChannels`` and replaced by ``mne.decoding.EpochsVectorizer`` by `Romain Trachel`_ + +- Deprecated ``lws`` and renamed ``ledoit_wolf`` for the ``reg`` argument in :class:`mne.decoding.CSP` by `Romain Trachel`_ + +- Redesigned and rewrote :meth:`mne.Epochs.plot` (no backwards compatibility) during the GSOC 2015 by `Jaakko Leppakangas`_, `Mainak Jas`_, `Federico Raimondo`_ and `Denis Engemann`_ + +- Deprecated and renamed ``mne.viz.plot_image_epochs`` for ``mne.plot.plot_epochs_image`` by `Teon Brooks`_ + +- ``picks`` argument has been added to :func:`mne.time_frequency.tfr_morlet`, :func:`mne.time_frequency.tfr_multitaper` by `Teon Brooks`_ + +- ``mne.io.Raw.preload_data`` has been deprecated for :func:`mne.io.Raw.load_data` by `Teon Brooks`_ + +- ``RawBrainVision`` objects now always have event channel ``'STI 014'``, and recordings with no events will have this channel set to zero by `Eric Larson`_ + +Authors +~~~~~~~ + +The committer list for this release is the following (preceded by number of commits): + +* 273 Eric Larson +* 270 Jaakko Leppakangas +* 194 Alexandre Gramfort +* 128 Denis A. Engemann +* 114 Jona Sassenhagen +* 107 Mark Wronkiewicz +* 97 Teon Brooks +* 81 Lorenzo De Santis +* 55 Yousra Bekhti +* 54 Jean-Rémi King +* 48 Romain Trachel +* 45 Mainak Jas +* 40 Alexandre Barachant +* 32 Marijn van Vliet +* 26 Jair Montoya +* 22 Chris Holdgraf +* 16 Christopher J. Bailey +* 7 Christian Brodbeck +* 5 Natalie Klein +* 5 Fede Raimondo +* 5 Alan Leggitt +* 5 Roan LaPlante +* 5 Ross Maddox +* 4 Dan G. Wakeman +* 3 Daniel McCloy +* 3 Daniel Strohmeier +* 1 Jussi Nurminen