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Hey! I found this dataset and implementation very useful and trying to implement it, but there are few things which are not getting into my mind. Please clear my queries. I'll highly appreciate quick …
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This is our 2021's calendar of community management.
Here we set up a rotating duty to take a first look at all contributions (PRs and issues) from the community, label them and ping relevant revie…
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hello -
i notice in your example you are setting somewhat manual filter thresholds on the ADT and GEX droplets. have you tried using other algorithms, like DropUtils::emptyDrops (https://rdrr.io/git…
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Meeting note on Feb 26. 2021
1. DNA footprinting pipeline(shared by Shannon): http://www.regulatory-genomics.org/hint/introduction/
2. DNA footprinting paper (shared by Shannon): https://genomebiolo…
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Hi Tommaso,
Thanks for the great tool! I'm trying to apply it for deconvolution of Visium data, and am puzzled with few questions.
First, what's the best way to normalize the data? In the example y…
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First of all, thank you for Scanorama! Pretty impressive package.
We work with CITEseq and examine patient samples longitudinally over multiple time points. For each time point we generate an RNA c…
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Hi,
sorry to bother again. I have a question regarding the reconstruction or rather the display of ubiquitous expressed genes. For now, plotting the genes on default just takes the viridiris color…
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Hi,
This is a really nice package. I am following your quantile normalization tutorials and wanted to see how the normalization algorithm also adjusted the control probe values (i.e. extension, hyb…
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@simongraham Hi. Thanks for helping with displaying the hover-net nuclei segmentation result.
We evaluated the hover-net performance on TCGA and our own dataset. The performance of nuclei segmentat…
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Proposal to separate part name (e.g. "tissue") from part preservation (e.g. "frozen").
Posting this as new issue related to repeated earlier discussion.
From email string:
These are clearly par…