Leonardo Collado-Torres

icon indicating a website link http://lcolladotor.github.io icon indicating an email [email protected]

icon company @LieberInstitute icon location Baltimore, USA icon location Find more information about myself at my website where I post my recent publications, talks, blog posts and other updates.

Results 133 comments of Leonardo Collado-Torres

DeconvoBuddies

Thanks for the confirmation Lori! Best, Leo

Conditional setting of `R_LIBS_USER`

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Comments on PR #111 + sharing trick we used for overlapping spots from overlapping capture areas

Hmm, is see at https://github.com/edward130603/BayesSpace/pull/111/files and in particular at https://github.com/edward130603/BayesSpace/pull/111/files#diff-2de0a6ab966efd85915ee3fa43a1f14c41edbde37cb62d758f551b8296b5febcR95 that you plan on adding the scale factors to the object. But this won't work for joint clustering, right? Since...

Miscellaneous error on https://libd.shinyapps.io/spatialLIBD/ when accessing genes (interactive)

Hi, Thank you for your interest in `spatialLIBD`! I couldn't reproduce your exact error and I wonder if you have more information that could help reproduce the problem. I did...

Improve spatial registration guide explanation of annotation

(private) Zoom recording info: https://jhu-genomics.slack.com/archives/C071A1RSDRD/p1749139202690569

[BUG] Can't compile source packages on Windows with devel bioc-check

Hi, April 17 2024 with `use_bioc_github_action(biocdocker = "devel")`. Hmm... that's around the time when R versions change every year. So it's likely that the authors of `rtracklayer` hadn't had enough...

The protein expression for spatialDLPFC_Visium_SPG

Hi, I believe that that information is on the `colData()` of the object. Right @Nick-Eagles? Best, Leo

The protein expression for spatialDLPFC_Visium_SPG

Thanks Nick!

Where can I get the full size H&E images?

Hi, They are only available via Globus. Best, Leonardo

Where can I get the full size H&E images?

Just to expand a bit, our data is hosted at JHPCE https://jhpce.jhu.edu/, which is down this week as noted at https://jhpce.jhu.edu/JHPCE-maintenance-july-2024/. So Globus will not work for a week or...