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Keen for `--IMC` to appear in a future version.
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We need to determine an appropriate way to preprocess the data, since protein abundance is not a linear function of the raw measured intensity. In the original Bendall et al. paper (http://www.science…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/molsysbio/RUCova
Confirm the following by editing…
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Hi,
I'm a member of the HuBMAP CMU TC team. I'd like to test this great work on 3D Image Mass Cytometry (IMC) images, but I didn't see the manual/instruction as Cellpose has. Would you please walk …
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Dear @CUHIMSR ,
Thank you for sharing this important tool for batch effect correction. I had a question regarding the reference sample named "anchor", i downloaded the fcs files from the vaccinati…
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Can one use the warpSet or gaussNorm function of flowStats to normalize high-dimensional CyTOF data? I have such data with a 36-marker panel for 70 samples and I want to reduce batch effects among the…
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Hi,
In the article 'MCMICRO: a scalable, modular image-processing pipeline for multiplexed tissue imaging', I noticed that the author also processed publicly availabel imaging mass cytometry (IMC) d…
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Hello!
CellxGene is by far my favourite viewer and kudos for doing a great job developing it and maintaining it!
What are the odds of extending cellxgene to handle other data modalities? I am no…
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Possible data:
- [Bystander CD8+ T cells are abundant and phenotypically distinct in human tumour infiltrates](https://www.ncbi.nlm.nih.gov/pubmed/29769722): https://flowrepository.org/id/FR-FCM-ZY…
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Can we use BERMUDA for mass cytometry (CyTOF) data? Unlike scRNA seq. data, CyTOF data may have only 20-40 variables (markers).