HTPheno: an image analysis pipeline for high-throughput plant phenotyping.
HTPheno: an image analysis pipeline for high-throughput plant phenotyping.
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HTPHENO：高通量植物表型的图像分析管道。
DOI：
10.1186/1471-2105-12-148
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发表时间：
2011-05-12
影响因子：
3
通讯作者：
Schreiber F
中科院分区：
文献类型：
--
作者：
Hartmann A;Czauderna T;Hoffmann R;Stein N;Schreiber F
在过去的几年中，高通量分析方法已经成为生命科学中最先进的方法。最新的发展之一是用于高通量植物表型分析的自动化温室系统。这种系统允许通过图像采集技术在一段时间内对植物进行非破坏性筛选。在这种筛选过程中，记录每个植物的不同图像，并且必须通过应用复杂的图像分析算法进行分析。本文提出了一种用于高通量植物表型分析的图像分析流水线（HTPheno）。HTPheno是ImageJ的一个插件，ImageJ是一个开源的图像处理软件。它提供了在筛选期间分析在两个不同视图（顶视图和侧视图）中拍摄的植物的彩色图像的可能性。在分析中，对于筛选的持续时间计算每种植物的不同表型参数，例如植物的高度、宽度和投影的枝条面积。应用HTPheno分析了两个大麦品种。HTPheno是一个开源的图像分析管道，提供了一个灵活且适应性强的ImageJ插件，可用于高通量植物表型分析中的自动图像分析，从而获得新的生物学见解，例如确定适合度。
In the last few years high-throughput analysis methods have become state-of-the-art in the life sciences. One of the latest developments is automated greenhouse systems for high-throughput plant phenotyping. Such systems allow the non-destructive screening of plants over a period of time by means of image acquisition techniques. During such screening different images of each plant are recorded and must be analysed by applying sophisticated image analysis algorithms. This paper presents an image analysis pipeline (HTPheno) for high-throughput plant phenotyping. HTPheno is implemented as a plugin for ImageJ, an open source image processing software. It provides the possibility to analyse colour images of plants which are taken in two different views (top view and side view) during a screening. Within the analysis different phenotypical parameters for each plant such as height, width and projected shoot area of the plants are calculated for the duration of the screening. HTPheno is applied to analyse two barley cultivars. HTPheno, an open source image analysis pipeline, supplies a flexible and adaptable ImageJ plugin which can be used for automated image analysis in high-throughput plant phenotyping and therefore to derive new biological insights, such as determination of fitness.
影响因子：
48
作者：
Walter, Thomas;Shattuck, David W.;Baldock, Richard;Bastin, Mark E.;Carpenter, Anne E.;Duce, Suzanne;Ellenberg, Jan;Fraser, Adam;Hamilton, Nicholas;Pieper, Steve;Ragan, Mark A.;Schneider, Jurgen E.;Tomancak, Pavel;Heriche, Jean-Karim
通讯作者：
Heriche, Jean-Karim
影响因子：
9.4
作者：
Walter, Achim;Scharr, Hanno;Schurr, Uli
通讯作者：
Schurr, Uli
影响因子：
9.4
作者：
Granier, C;Aguirrezabal, L;Tardieu, F
通讯作者：
Tardieu, F