plantcv
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danforthcenter
Plant phenotyping with image analysis
Hello, My name is Maryan; a student at the University of Minnesota. I work in the Cory Hirsch lab and now I am working with the Bellwether phenotyping data, specifically...
**Additional context** Using plantcv 13.4.1 on a windows 10 machine. **Describe the bug** In the documentation: https://plantcv.readthedocs.io/en/4.x/photosynthesis_read_cropreporter/ The function is called as follows: `ps = pcv.photosynthesis.read_cropreporter(filename="PSII_HDR_020321_WT_TOP_1.INF")` If we than look...
**Describe the solution you'd like** There are thoughts about how to make functions like `fill`, `fill_holes`, `closing` have function names that better describe the morphological changes happening to the binary...
Hello, I have been running a PCV workflow on a HPC cluster, and currently it outputs results files the same way that local parallelization would work (however the for the...
**Describe the bug** https://plantcv.readthedocs.io/en/latest/parallel_config/#example --> `python %CONDA_PREFIX%/Scripts/plantcv-run-workflow --config my_config.json` **Expected behavior** Update to latest syntax ( just `run-plantcv-workflow` now?)
When I was working on my plant phenotyping Capstone project for MarsFarm, when I was trying to calculate rois automatically for a diverse set of images I developed a program...
Currently `plantcv` requires opencv-python which comes with a lot of bloat (GUI, libGL etc) if those are not needed. Typical solution for projects that do not need that is simply...
**Describe the bug** Hi all, when I try to use the Parallel workflow for all my pictures running on a terminal, the latest error I got is as follows. usage:...
**Is your feature request related to a problem? Please describe.** something I think Mao mentioned before, which is that other watershed algorithms that use the rgb/grayscale image to inform marker...
**Describe your changes** Adding a tutorial for doing kmeans cluster training, classification of a target image, and combining of clusters into binary masks. **Type of update** * Update to documentation...
