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OpenSegSPIM: a user-friendly segmentation tool for SPIM data.
Gole, Laurent; Ong, Kok Haur; Boudier, Thomas; Yu, Weimiao; Ahmed, Sohail.
Affiliation
  • Gole L; Institute of Medical Biology, Agency for Science, Technology and Research (A*STAR).
  • Ong KH; Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR).
  • Boudier T; IPAL UMI 2955 (CNRS, UPMC, UJF, IMT, I2R, NUS), BioInformatics Institute (BII), Agency for Science, Technology and Research (A*STAR), 13867, Singapore.
  • Yu W; Institute of Molecular and Cell Biology, Agency for Science, Technology and Research (A*STAR).
  • Ahmed S; Institute of Medical Biology, Agency for Science, Technology and Research (A*STAR).
Bioinformatics ; 32(13): 2075-7, 2016 07 01.
Article in En | MEDLINE | ID: mdl-27153681
ABSTRACT
UNLABELLED OpenSegSPIM is an open access and user friendly 3D automatic quantitative analysis tool for Single Plane Illumination Microscopy data. The software is designed to extract, in a user-friendly way, quantitative relevant information from SPIM image stacks, such as the number of nuclei or cells. It provides quantitative measurement (volume, sphericity, distance, intensity) on Light Sheet Fluorescent Microscopy images. AVAILABILITY AND IMPLEMENTATION freely available from http//www.opensegspim.weebly.com Source code and binaries under BSD License. CONTACT lgole@imcb.a-star.edu.sg or wmyu@imcb.a-star.edu.sg or sohail.ahmed@imb.a-star.edu.sg SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Software / Image Interpretation, Computer-Assisted / Microscopy Limits: Animals / Humans Language: En Journal: Bioinformatics Journal subject: INFORMATICA MEDICA Year: 2016 Document type: Article
Fulltext
Add to My VHL
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Software / Image Interpretation, Computer-Assisted / Microscopy Limits: Animals / Humans Language: En Journal: Bioinformatics Journal subject: INFORMATICA MEDICA Year: 2016 Document type: Article