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See if any of my existing histology composite slides show cerebellum nucleus labeling and have good DTN injection. Especially looking for mice with injection site labeling circumscribed to DTN only. S…
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Hope all is well! I was hoping to try and use VALIS to register my sections from different patients to a standard space so that I could perform downstream topographical analyses. An example of the sta…
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I am working on developing an ontology for histopathology reports.
In OBI histology has as synonym histopathology http://purl.obolibrary.org/obo/OBI_0600020
I think that these should be two differ…
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Comparing the primary sample information for Patient 43 and 35 from v11 to the corresponding progression samples in the new histology file [histologies_v11-base-add-BS_AG4BP2PM.tsv](https://cavatica.s…
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Hello,
I am a external user, and I am facing some troubling issues when preparing histology data. I am reaching out to see if you can help me resolve these problems, your assistance would be greatl…
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Hi,
first of all I would like to thank you for this great tool.
I just finished the biorxiv paper and was start using the SHARP-Track code on my slices. So far my pictures are not perfect (because…
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Hi Johannes,
Hope you are well! I have encountered some issues with the inverse transformation unfortunately and was hoping you could please assist. I am currently aiming to analyse irradiation-inj…
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I don't get how to run segmentation with your scripts.
How can the model know what t osegment if we don'T provide any examples of image/segmentation pairs?
Do I need first to finetune/train on my da…
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Hi,
We'd like to request a batch of new terms as part of the CFDE project for SenNet and HubMap DCCs.
Attached is a file of the terms.
There is still work to be done on axiomization and a few o…
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In version 1.6.5:
- [ ] Added [spectra](https://github.com/dpeerlab/spectra) to calculate the score of geneset
- [ ] Added [Starfysh](https://www.nature.com/articles/s41587-024-02173-8#Abs1) to inte…