moco: Fast Motion Correction for Calcium Imaging

Motion correction is the first step in a pipeline of algorithms to analyze calcium imaging videos and extract biologically relevant information, for example the network structure of the neurons therein. Fast motion correction is especially critical for closed-loop activity triggered stimulation experiments, where accurate detection and targeting of specific cells in necessary. We introduce a novel motion-correction algorithm which uses a Fourier-transform approach, and a combination of judicious downsampling and the accelerated computation of many L2 norms using dynamic programming and two-dimensional, fft-accelerated convolutions, to enhance its efficiency. Its accuracy is comparable to that of established community-used algorithms, and it is more stable to large translational motions. It is programmed in Java and is compatible with ImageJ.

• Publication year

  2015

• Venue

  Front. Neuroinform.

• Publication date

  2015-06-19

• Fields of study

  Medicine, Computer Science, Mathematics

• Identifiers
  DOI 10.3389/fninf.2016.00006arXiv 1506.06039PMID 26909035PMCID 4754735
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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