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Kinematics analysis software tools | Bioimaging

A major challenge in plant biology is to understand organ growth in terms of underlying molecular processes. All known hormones, nutrition and many environmental factors influence organ growth. Despite major advances in our understanding of the…
KymoRod
Desktop

KymoRod

Graphical User Interface for studying the growth of plant hypocotyl and root.…

Graphical User Interface for studying the growth of plant hypocotyl and root. KymoRod allows to select a collection of images following the growth of a plant organ. Several processing steps can be…

HYPOTrace
Desktop

HYPOTrace

An automated tool for making high-resolution measurements of Arabidopsis…

An automated tool for making high-resolution measurements of Arabidopsis hypocotyls may find many uses in plant biology research and education. HYPOTrace is able to measure light-induced hypocotyl…

BRAT
Desktop

BRAT Buschlab Root Analysis Toolchain

A comprehensive and scalable pipeline that allows for the efficient phenotyping…

A comprehensive and scalable pipeline that allows for the efficient phenotyping of root growth traits on a large scale. BRAT enables scalable image acquisition and processing, as well as storing of…

Growth Explorer
Desktop

Growth Explorer

A unified approach for exploring the finer details of root development and…

A unified approach for exploring the finer details of root development and growth. Growth Explorer treats a stack of two-dimensional (2D) time-lapse images as a three-dimensional (3D) volume of image…

RootTrace
Desktop

RootTrace

A high-throughput, automatic method to trace Arabidopsis (Arabidopsis thaliana)…

A high-throughput, automatic method to trace Arabidopsis (Arabidopsis thaliana) seedling roots grown on agarose plates. RootTrace combines a particle-filtering algorithm with a graph-based method to…

KineRoot
Desktop

KineRoot

An image-analysis program developed to study spatio-temporal patterns of growth…

An image-analysis program developed to study spatio-temporal patterns of growth and curvature of roots. KineRoot tracks the displacement of patterns created by the graphite particles over space and…

ARTT
Desktop

ARTT Analyser for root tip tracks

An image-analysis tool to study the kinematics of the root tip (apex). ARTT…

An image-analysis tool to study the kinematics of the root tip (apex). ARTT implementation combines a segmentation algorithm with additional software imaging filters in order to realize a 2D tip…

GrowthTracer
Desktop

GrowthTracer

An image-analysis program for the kinematic study of root elongation.…

An image-analysis program for the kinematic study of root elongation. GrowthTracer employs a multiresolution image matching method with a nonlinear filter called the critical point filter (CPF),…

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