Skip to main content

Tool to analyse images of cleared and trypan blue stained leaves to assess leaf damage.

Project description

Tool to analyse images of cleared and trypan blue stained leaves to assess leaf damage.

limu_original.py is the program used for the original publication.

limu.py is updated to be somewhat flexible with project parameters outside the script itself. It might need tweaking to suit your project though.

Currently only works with Canon .cr2 raw images. If you have other types please let me know and I might add other formats.

usage: limu [-h] [-p PROJECT] [-i INDIR] [-v] [-r]

Tool to analyse images of cleared and troptophan stained leaves to assess leaf damage.

optional arguments:
  -h, --help            show this help message and 

  -p PROJECT, --project PROJECT
                        path to projects directory, if not supplied one will
                        be requested interactively. If limu.conf file found in
                        current working directory, this will be used

  -i INDIR, --input-dir INDIR
                        path to infile root directory

  -v, --verbose         Print more stuff

  -r, --recalculate     Force recalculation, NOT IMPLEMENTED

Mulaosmanovic, E., Lindblom, T.U.T., Bengtsson, M., Windstam, S.T., Mogren, L., Marttila, S., Stützel, H., Alsanius, B.W., 2020. High-throughput method for detection and quantification of lesions on leaf scale based on trypan blue staining and digital image analysis. Plant Methods 16, 62. https://doi.org/10.1186/s13007-020-00605-5

Full source is available at https://gitlab.com/thorgil/limu

Project details


Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

LiMu-0.0.38.tar.gz (19.2 kB view hashes)

Uploaded source

Built Distribution

limu-0.0.38-py3-none-any.whl (20.8 kB view hashes)

Uploaded py3

Supported by

AWS AWS Cloud computing Datadog Datadog Monitoring Facebook / Instagram Facebook / Instagram PSF Sponsor Fastly Fastly CDN Google Google Object Storage and Download Analytics Huawei Huawei PSF Sponsor Microsoft Microsoft PSF Sponsor NVIDIA NVIDIA PSF Sponsor Pingdom Pingdom Monitoring Salesforce Salesforce PSF Sponsor Sentry Sentry Error logging StatusPage StatusPage Status page