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BrainAligner specifications

Information


Unique identifier OMICS_13416
Name BrainAligner
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability No
Maintained No

Taxon


  • Invertebrates
    • Drosophila melanogaster

Versioning


No version available

Maintainer


This tool is not available anymore.

Publication for BrainAligner

BrainAligner citations

 (7)
library_books

Fast assembling of neuron fragments in serial 3D sections

2017
PMCID: 5563299
PMID: 28365869
DOI: 10.1007/s40708-017-0063-9

[…] research campus. he is also an adjunct or affiliate professor with several usa and china universities. he is the inventor of a number of algorithms and software/hardware systems, including vaa3d, brainaligner, neurontracers, smartscope, mrmr, and 3d virtual finger. his recent work includes developing novel and very efficient algorithms for 3d and high-dimensional image analysis and data […]

library_books

Fully automatic and robust 3D registration of serial section microscopic images

2015
PMCID: 4598826
PMID: 26449756
DOI: 10.1038/srep15051

[…] in the ., 108 serial-section images of laser scanning microscopy of the drosophila brain is adopted as the fourth test set. this dataset is originally used to evaluate a 4d registration technology - brainaligner by peng et al., which aligns pairs of 3d brain volumes. as shown in , a plane is randomly defined to extract side views of reconstructed anatomical objected by individual methods, and 3d […]

library_books

Global analysis of gene expression and projection target correlations in the mouse brain

2015
PMCID: 4883149
PMID: 27747484
DOI: 10.1007/s40708-015-0014-2

[…] with several usa and china universities and serves on the advisory board of a few organizations. he is the inventor of a number of algorithms and software/hardware systems, including vaa3d, brainaligner, neurontracers, smartscope, mrmr, and 3d virtual finger. his recent work includes developing novel and very efficient algorithms for 3d and high-dimensional image analysis and data […]

library_books

Robust image registration of biological microscopic images

2014
PMCID: 4131219
PMID: 25116443
DOI: 10.1038/srep06050

[…] our experiments on serial histopathological images, the six state of the art image registration techniques, including trakem2, surf + affine transformation, unwarpj, bunwarpj, clahe + bunwarpj and brainaligner, achieve no greater than 70% averaged accuracies, while the proposed method achieves 91.49% averaged accuracy. the proposed method has also been demonstrated to be significantly better […]

library_books

Automatic landmark annotation and dense correspondence registration for 3D human facial images

2013
PMCID: 3724574
PMID: 23870191
DOI: 10.1186/1471-2105-14-232

[…] dsm, has revealed great potential in series of medical genetic studies of face dysmorphology [-]. in the field of brain research, efficient non-rigid methods, such as hammer [], tps-hammer [] and brainaligner [] were developed for specific image data, and successfully applied in detection of aging/disease induced brain morphological changes [] and delineation of ultrastructures [] […]

library_books

Integrating anatomy and function for zebrafish circuit analysis

2013
PMCID: 3632786
PMID: 23630469
DOI: 10.3389/fncir.2013.00074

[…] and functional data. in c. elegans, the defined cell lineage provides a framework for such databases. for drosophila, cellular resolution has been achieved for registration of different brains (brainaligner, peng et al., ), while for mouse and human such databases operate at a more coarse anatomical level (allen brain atlas, http://www.brain-map.org and mgi mouse genome informatics jackson, […]


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BrainAligner institution(s)
Janelia Farm Research Campus, Howard Hughes Medical Institute, Ashburn, VA, USA

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