Name: Kouichi C. Nakamura
Type: User
Company: MRC Brain Network Dynamics Unit/University of Oxford
Bio: Kouichi is a postdoctoral neuroscientist working at MRC Brain Network Dynamics Unit, University of Oxford, UK.
Location: UK
Blog: http://researchmap.jp/kouichi_nakamura/
Kouichi C. Nakamura's Projects
Tools to work with Allen Inst CCF data in matlab
Histology processing
styles.less file customization for MATLAB language
Bio-Formats documentation
MATLAB tool to analyze neuroscience data derived from Spike2 acquisition software
Assuming you have communication between ImageJ and MATLAB via ImageJ-MATLAB, copytoImagePlus allows you to turn a MATLAB array into ImagePlus object.
ImageJ plugin code written in JAVA for Nakamura K, Watakabe A, Hioki H, Fujiyama F, Tanaka Y, Yamamori T, Kaneko T (2007) Transiently increased colocalization of vesicular glutamate transporters 1 and 2 at single axon terminals during postnatal development of mouse neocortex: a quantitative analysis with correlation coefficient. Eur J Neurosci 26:3054–3067, http://doi.org/10.1111/j.1460-9568.2007.05868.x
Cytation Style Language (CSL) style for Nature with DOI URL links
Based on Nature's numbered style but only the first author is shown and title of paper is omitted.
CSL
the-journal-of-neuroscience-doi.csl is CSL style definition for Zotero and other bibliographic software. The style is based on one for the Journal of Neuroscience, but with a link URL for DOI or, if DOI is not available, an URL (this can be link to PubMed entry or journal web site etc). The style is useful in written communication, such as emails.
MATLAB package to generate contrast plots
A "batteries-included" distribution of ImageJ :battery:
a wrapper of net.imagej.matlab.ImageJMATLABCommands.show() to support opening a MATLAB array as 5D hyperstack in ImageJ
MATLAB integration with ImageJ data structures and runtime.
Fast spike sorting with drift correction for up to a thousand channels
Spike2 language support for Atom.
Plugins for OMERO
OME (Open Microscopy Environment) develops open-source software and data format standards for the storage and manipulation of biological light microscopy data. A joint project between universities, research establishments and industry in Europe and the USA, OME has over 20 active researchers with strong links to the microscopy community. Funded by private and public research grants, OME has been a major force on the international microscopy stage since 2000.
MATLAB code for the phase-analysis of continuous data, including EEG and background unit activity (BUA)
Software for processing, recording, and visualizing multichannel electrophysiology data
A MATLAB class that plays subtitles in *.srt format. Useful when you watch flims which lack subtitles.
Zotero Translators
A fast and unsupervised algorithm for spike detection and sorting using wavelets and super-paramagnetic clustering
Zotero translator for Nikkei business online