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Software for analysis of sequential imaging data

Project description


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 <>


Optional dependencies


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 <>.

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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 (2.6 MB) Copy SHA256 hash SHA256 Source None Aug 19, 2014

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