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Stimfit specifications

Information


Unique identifier OMICS_26143
Name Stimfit
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Input format ABF,ATF,AXG,CFS
Output format CFS,GDF,HDF5,IBW
Operating system Unix/Linux, Mac OS, Windows
Programming languages C, C++, Python, Shell (Bash)
License GNU General Public License version 2.0
Computer skills Medium
Version 0.15.4
Stability Stable
Requirements
NumPy, SciPy
Maintained Yes

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Documentation


Maintainer


  • person_outline Christoph Schmidt-Hieber <>

Additional information


http://www.stimfit.org/tutorial/minis.dat https://github.com/neurodroid/stimfit/wiki

Publication for Stimfit

Stimfit in publications

 (29)
PMCID: 5896255
PMID: 29621485
DOI: 10.1016/j.neuron.2018.02.024

[…] and 0%–0.2% biocytin, ph adjusted to 7.3 with koh. 50–100 μm alexa fluor 488 (invitrogen) was added to the internal solution for all somatic recording electrodes., analysis was performed using stimfit 0.9.2–0.13.2 (), clampfit 9 (molecular devices), origin 2015 (microcal), excel (microsoft), and minitab 17 (minitab). ap amplitude was measured from threshold (50 v s−1), and half-duration […]

PMCID: 5896953
PMID: 29578411
DOI: 10.7554/eLife.35269.040

[…] x-100% and 0.2% streptavidin-cy3 in pbs and were again incubated overnight in 4°c. finally, slices were mounted with dako s3023 medium., custom-made routines written in igor pro 6.3 (wavemetrics), stimfit 0.15 () or prism (graphpad) were used for data analysis and statistical testing. spike threshold value was determined as the time point at which the derivative of voltage exceeded 40 v/s […]

PMCID: 5683353
PMID: 28902836
DOI: 10.1038/nature23658

[…] for further optimization by the levenberg-marquardt algorithm., throughout the paper, for clear presentation the stimulus artefact was blanked out. slice electrophysiology data was analysed in stimfit v0.13 (https://github.com/neurodroid/stimfit/wiki/stimfit) using custom python modules (see )., organotypic slices were prepared, transfected, dialysed and pre-treated with biotin-binding […]

PMCID: 5566870
PMID: 28760859
DOI: 10.1523/JNEUROSCI.3728-16.2017

[…] normality was tested by the shapiro–wilk test. differences were considered statistically significant at p < 0.05. intrinsic properties as well as psc amplitudes and kinetics were analyzed using stimfit software (). for data acquired with patch-clamp recording (,) or in vivo single-unit recording (see ); n is the number of neurons, with one cell per brain slice (to enable anatomical […]

PMCID: 5500892
PMID: 28675162
DOI: 10.1038/ncomms15910

[…] slices obtained from at least three different animals from three different pups; recordings from virally transduced and non-infected control cells were performed in the same slices., data analysis. stimfit 0.9 software and igor pro (wavemetrics, usa) were used to analyse data from spontaneous and evoked epscs. the rise time 20–80% was determined as the time interval between the points […]


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Stimfit institution(s)
Institute of Science and Technology Austria, Klosterneuburg, Austria; Institute for Biomedical Research, University College London, London, UK; Department of Neuroscience, Physiology and Pharmacology, University College London, London, UK
Stimfit funding source(s)
Supported by grants from the European Research Council, the Wellcome Trust and the Gatsby Charitable Foundation; the Alexander von Humboldt Foundation.

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