plantcv | Plant phenotyping with image analysis | Genomics library

by danforthcenter Python Version: 4.3.1 License: MIT

X-Ray Key Features Code Snippets Community Discussions(1)Vulnerabilities Install Support

kandi X-RAY | plantcv Summary

plantcv is a Python library typically used in Artificial Intelligence, Genomics applications. plantcv has no bugs, it has no vulnerabilities, it has build file available, it has a Permissive License and it has low support. You can install using 'pip install plantcv' or download it from GitHub, PyPI.

PlantCV is an open-source image analysis software package targeted for plant phenotyping. PlantCV provides a common programming and documentation interface to a collection of image analysis techniques that are integrated from a variety of source packages and algorithms. PlantCV utilizes a modular architecture that enables flexibility in the design of analysis workflows and rapid assimilation and integration of new methods. For more information about the project, links to recorded presentations, and publications using PlantCV, please visit our homepage:

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plantcv has a low active ecosystem.

It has 542 star(s) with 242 fork(s). There are 44 watchers for this library.

There were 2 major release(s) in the last 6 months.

There are 55 open issues and 405 have been closed. On average issues are closed in 81 days. There are 23 open pull requests and 0 closed requests.

It has a neutral sentiment in the developer community.

The latest version of plantcv is 4.3.1

Quality

plantcv has 0 bugs and 0 code smells.

Security

plantcv has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.

plantcv code analysis shows 0 unresolved vulnerabilities.

There are 0 security hotspots that need review.

License

plantcv is licensed under the MIT License. This license is Permissive.

Permissive licenses have the least restrictions, and you can use them in most projects.

Reuse

plantcv releases are available to install and integrate.

Deployable package is available in PyPI.

Build file is available. You can build the component from source.

Top functions reviewed by kandi - BETA

kandi has reviewed plantcv and discovered the below as its top functions. This is intended to give you an instant insight into plantcv implemented functionality, and help decide if they suit your requirements.

Parse metadata
Parse a filenames
Check if the given date is in the included range
Check if metdata is met
Return a dict of cmdclass based on cmdclass
Create a ConfigParser from root
Get project root directory
Extract the version information from the VCS
Scans the versioneer py file and checks if it is missing
Calculate the PSRI index
Create a dask - cluster client
Compute the MCariance index from an incidence angle
Calculate the rvsi - spectral index
Calculate the MTI index for a given distance
Estimate the eviance of the spectrogram
Compute mari index
Calculate average pixel intensities
Compute the spi index of the spectrum
R Generate a variational variational variogram
Computes the egi index of an image
Create the versioneer config file
Argument parser
Build the job builder
Process the results of an image processing job
Rotate image
Extract version information from the VCS

Get all kandi verified functions for this library.

plantcv Key Features

No Key Features are available at this moment for plantcv.

plantcv Examples and Code Snippets

No Code Snippets are available at this moment for plantcv.

Community Discussions

Trending Discussions on plantcv

How to get rid of skeleton line except contour?

QUESTION

How to get rid of skeleton line except contour?

Asked 2021-Apr-18 at 09:02

I want to get rid of the skeletonized lines except the contours using python.

And, want to extract only the largest contour.

(Actually, I tried to make skeletonized line from the segmented mask. And, I got the main stem with contour like above picture. Among the contours, I want to extract only the contour with largest area.)

I don't know how to do it. Please help me if you have any idea.

Thanks in advance.

...

ANSWER

Answered 2021-Apr-18 at 07:36

using skimage (if you don't have it: conda install scikit-image)

Source https://stackoverflow.com/questions/67145138

Community Discussions, Code Snippets contain sources that include Stack Exchange Network

Vulnerabilities

No vulnerabilities reported

Install plantcv

You can install using 'pip install plantcv' or download it from GitHub, PyPI.
You can use plantcv like any standard Python library. You will need to make sure that you have a development environment consisting of a Python distribution including header files, a compiler, pip, and git installed. Make sure that your pip, setuptools, and wheel are up to date. When using pip it is generally recommended to install packages in a virtual environment to avoid changes to the system.

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DocumentationInteractive DocumentationInstallation InstructionsUpdating/ChangelogPublic Image DatasetsContribution GuideCode of ConductDownloads GitHub PyPI Conda-forge Docker Zenodo

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