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Software for analysis of sequential imaging data

Project description

Overview

SIMA (Sequential IMage Analysis) is an Open Source package for analysis of time-series imaging data arising from fluorescence microscopy. The functionality of this package includes:

  • correction of motion artifacts
  • segmentation of imaging fields into regions of interest (ROIs)
  • extraction of dynamic signals from ROIs

The included ROI Buddy software provides a graphical user interface (GUI) supporting the following functionality:

  • manual creation of ROIs
  • editing of ROIs resulting from automated segmentation
  • registration of ROIs across separate imaging sessions

Installation and Use

For complete documentation go to <http://www.losonczylab.org/sima>

Dependencies

Optional dependencies

License

Unless otherwise specified in individual files, all code is

Copyright (C) 2014 The Trustees of Columbia University in the City of New York.

This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see <http://www.gnu.org/licenses/>.

Project details


Release history Release notifications

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1.3.2

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1.3.1

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1.3.0

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1.2.1

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1.2.0

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1.1.1

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1.1.0

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1.0.3

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1.0.2

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1.0.1

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1.0.0

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0.3.2

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0.3.1

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0.3.0

This version
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0.2.1

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0.2.0

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0.1.1

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0.1

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Filename, size & hash SHA256 hash help File type Python version Upload date
sima-0.2.1-cp27-none-macosx_10_9_x86_64.whl (2.5 MB) Copy SHA256 hash SHA256 Wheel cp27 Aug 20, 2014
sima-0.2.1-cp27-none-win32.whl (2.3 MB) Copy SHA256 hash SHA256 Wheel 2.7 Aug 20, 2014
sima-0.2.1.linux-x86_64.tar.gz (2.7 MB) Copy SHA256 hash SHA256 Dumb Binary 2.7 Aug 19, 2014
sima-0.2.1-py2.7-linux-x86_64.egg (2.7 MB) Copy SHA256 hash SHA256 Egg 2.7 Aug 19, 2014
sima-0.2.1-py2.7-macosx-10.9-x86_64.egg (2.7 MB) Copy SHA256 hash SHA256 Egg 2.7 Aug 20, 2014
sima-0.2.1-py2.7-win32.egg (2.5 MB) Copy SHA256 hash SHA256 Egg 2.7 Aug 20, 2014
sima-0.2.1.tar.gz (2.5 MB) Copy SHA256 hash SHA256 Source None Aug 19, 2014
sima-0.2.1.win32-py2.7.exe (2.5 MB) Copy SHA256 hash SHA256 Windows Installer 2.7 Aug 19, 2014
sima-0.2.1.zip (2.6 MB) Copy SHA256 hash SHA256 Source None Aug 19, 2014

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