OpenSegSPIM: a user-friendly segmentation tool for SPIM data

被引：10
|
作者：
Gole, Laurent [1 ]
Ong, Kok Haur [2 ]
Boudier, Thomas [3 ]
Yu, Weimiao [2 ]
Ahmed, Sohail [1 ]
机构：
[1] ASTAR, Inst Med Biol, Singapore 13867, Singapore
[2] ASTAR, Inst Mol & Cell Biol, Singapore 13867, Singapore
[3] ASTAR, BioInformat Inst BII, IPAL, UMI 2955,CNRS,UPMC,UJF,IMT,I2R,NUS, Singapore 13867, Singapore
来源：
BIOINFORMATICS | 2016年 / 32卷 / 13期
关键词：
PLANE ILLUMINATION MICROSCOPY; LIGHT-SHEET MICROSCOPY; SOFTWARE; PLATFORM;
D O I：
10.1093/bioinformatics/btw093
中图分类号：
Q5 [生物化学];
学科分类号：
071010 ; 081704 ;
摘要：
A Summary: 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.
引用
收藏
页码：2075 / 2077
页数：3
相关论文
共 50 条
  • [1] CORNET: A User-Friendly Tool for Data Mining and Integration
    De Bodt, Stefanie
    Carvajal, Diana
    Hollunder, Jens
    Van den Cruyce, Joost
    Movahedi, Sara
    Inze, Dirk
    PLANT PHYSIOLOGY, 2010, 152 (03) : 1167 - 1179
  • [2] genomeSidekick: A user-friendly epigenomics data analysis tool
    Chen, Junjie
    Zhu, Ashley J.
    Packard, Rene R. S.
    Vondriska, Thomas M.
    Chapski, Douglas J.
    FRONTIERS IN BIOINFORMATICS, 2022, 2
  • [3] A User-Friendly Visualization Tool for Multi-Omics Data
    Huh, Sunghyun
    Kim, Min-Sik
    PROTEOMICS, 2020, 20 (21-22)
  • [4] MetaConfigurator: A User-Friendly Tool for Editing Structured Data Files
    Neubauer, Felix
    Bredl, Paul
    Xu, Minye
    Patel, Keyuriben
    Pleiss, Jürgen
    Uekermann, Benjamin
    Datenbank-Spektrum, 2024, 24 (02) : 161 - 169
  • [5] MASE: A user-friendly performance tool
    Guat, Yew Tan
    Hura, Gurdeep Singh
    Microelectronics Reliability, 1996, 36 (06): : 821 - 841
  • [6] MASE: A user-friendly performance tool
    Tan, GY
    Hura, GS
    MICROELECTRONICS AND RELIABILITY, 1996, 36 (06): : 821 - 841
  • [7] A user-friendly tool for image analysis
    Nair H.
    Pattern Recognition and Image Analysis, 2006, 16 (2) : 234 - 238
  • [8] AUG-Segmenter: a user-friendly tool for segmentation of long time series
    Gedikli, Abdullah
    Aksoy, Hafzullah
    Unal, N. Erdem
    JOURNAL OF HYDROINFORMATICS, 2010, 12 (03) : 318 - 328
  • [9] SRMBUILDER: A USER-FRIENDLY TOOL FOR SELECTED REACTION MONITORING DATA ANALYSIS
    Sheng, Quanhu
    Wu, Chaochao
    Su, Zhiduan
    Zeng, Rong
    JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2011, 9 : 51 - 62
  • [10] Benchmarking MicrobIEM - a user-friendly tool for decontamination of microbiome sequencing data
    Huelpuesch, Claudia
    Rauer, Luise
    Nussbaumer, Thomas
    Schwierzeck, Vera
    Bhattacharyya, Madhumita
    Erhart, Veronika
    Traidl-Hoffmann, Claudia
    Reiger, Matthias
    Neumann, Avidan U.
    BMC BIOLOGY, 2023, 21 (01)
12345