Top Tweets for #spatialexperiment
#spatialLIBD @PardoBree et al and #SpatialExperiment by @drighelli @CrowellHL @lmwebr came out in the meantime
β#BayesSpace by @edward130603 @raphg
#Tangram @tbyanc #Cell2Location @bayraktar_lab #SPOTlight @elosua_bayes and many more followed
See @LambdaMoses's museum π
Marcel @M2RUseR from @Bioconductor core set out to develop a #rstats package π¦ to import data from @10xGenomics data
#TENx10 might replace #DropletUtils or other import packages π¦
I know this could affect #SpatialExperiment and also #spatialLIBD
#bioc2022
Lambda @LambdaMoses is explaining #SpatialFeatureExperiment https://t.co/hxcngXduES which you can try at https://t.co/rnmEOUvYQj
#SpatialExperiment can be coerced to SFE
#Voyager https://t.co/GOwPiWbGZ1 can exploreπ SFE
Can use segmentation masks π·
π @Bioconductor
#BioC2022
Together with @lcolladotor, I updated #spatialLIBD to make it able to store the data in #SpatialExperiment objects, a class created to contain spatial transcriptomics data by @drighelli, @drisso1893, @CrowellHL and @lmwebr
https://t.co/QlUuyZkjgH
10/n
Wanna chat about #VisiumIF #Visium by @10xGenomics & how to analyze it with #rstats #spatialLIBD #SpatialExperiment @Bioconductor et al?
I'll be at Biondi on poster 87
Work with @sanghokwon17 @MadhaviTippani @sowmyapartybun @kr_maynard et al
Looking for a journal π π
#BoG22
Are you analyzing spatially-resolved transcriptomics data? Visium from @10xGenomics? You might want to use #SpatialExperiment which provides a common infrastructure fully compatible with @Bioconductor's ecosystem #rstats
More details? Open access paper πhttps://t.co/4Y2RN4Wz2z
So many special thanks to @lmwebr, @CrowellHL, @stephaniehicks and @drisso1893.
But also to @PardoBree @lcolladotor @shazanfar Aaron and the whole @Bioconductor community!
ππ€©
I'm super happy to announce that our #SpatialExperiment paper is finally out in the #Bioinformatics journal ππ
Take a look to discover our latest improvements to the class and other related packages π
https://t.co/CtVWxOjz4c
What an exciting dev cycle for my @LieberInstitute team! Everyone is now a @Bioconductor 3.15 contributor π
* #TREG π¦ https://t.co/ZuIl1vM9U2
* #SpatialExperiment https://t.co/PxV4Pn0G62
* #qsvaR π¦ https://t.co/uHT4SvwFuM
Congrats @lahuuki @JoshStolz2 Nick-Eagles!!
#rstats
In 12/21, Abby @abspangler presented on "Understanding the structure of #SpatialExperiment objects"
Includes BioC 3.15 updates!
A @Bioconductor π¦ by @drighelli @CrowellHL @lmwebr et al
#rstats
π» https://t.co/1754pju58W
π https://t.co/p75dOqDgKm
π₯ https://t.co/OJApwETB4r
Leo explained how to use R/devel at JHPCE & your computer. Useful for accessing the latest versions of @Bioconductor packages (like #spatialLIBD #SpatialExperiment) or when preparing one.
Shoutout to @KasperDHansen!
#rstats
π https://t.co/rmam8kloDq
π₯ https://t.co/MPkeUKFCM8
@lmwebr @jo_rainer @Bioconductor Thank you Lukas!! ^^ I bet that youβll be next thanks to #SpatialExperiment #OSTA π― and company ;)
I mean, you are also a @TheSymbionts ππ½βπ½π
mistyR is now in @Bioconductor thanks to the herculean work of @tanevski
Check the new vignettes to estimate spatial interactions between your markers of interest.
For @10xGenomics visium data, we provide pipelines to be used with #Seurat or #SpatialExperiment objects
mistyR (https://t.co/sVfB4wTG3Y),
(https://t.co/0pHh465nQN) for the analysis of #spatialomics is available thanks to our @tanevski and @roramirezf94. Check out the available vignettes to get started and also for demonstration with #SpatialExperiment and #Seurat objects.
mistyR (https://t.co/sVfB4wTG3Y),
(https://t.co/0pHh465nQN) for the analysis of #spatialomics is available thanks to our @tanevski and @roramirezf94. Check out the available vignettes to get started and also for demonstration with #SpatialExperiment and #Seurat objects.
Spatial Announcement: The latest #SpatialExperiment @Bioconductor package (v 1.1.700) has just passed all the checks on the devel platformπ
Please take a look if you have a package depending on it or even if you are just interested in spatial transcriptomics and Bioconductor π
My participation in this project consisted of updating the #spatialLIBD package to make it able to store the data in #SpatialExperiment objects, a class created to contain spatial transcriptomics data by @drighelli, @drisso1893, @CrowellHL and @lmwebr.
7/9
Join Kristen @kr_maynard & me in a few minutes for our @bioturing webinar
We'll talk about our Visium @10xGenomics data, #SpatialExperiment + #spatialLIBD #rstats / @Bioconductor π¦s, clustering challenges & more
Register: https://t.co/ty4OnMqJwO
Slides: https://t.co/6gnZzyi8Vv
Want to learn about #spatialtranscriptomics and the human prefrontal cortex?
Join us for our upcoming webinar, ft. @kr_maynard, @lcolladotor (@LieberInstitute) and their exciting work characterizing the 6-layered DLPFC using @10xGenomics Visium.
Sign up:
https://t.co/jCUNdNJvRX
In Jan I presented at the CDC ATSDR #rstats User Group organized by @sabschatzman & Sean
It was my first time talking about #spatialLIBD and #recount3 at the same time, with shout outs to #SpatialExperiment & other projects
π₯οΈ https://t.co/E0nTNky5IM
πΉ https://t.co/UVTR0uDIIn
Are you working with spatial transcriptomics data such as Visium from @10xGenomics? Then you'll be interested in #SpatialExperiment π¦ led by @drighelli @lmwebr @CrowellHL with contributions by @PardoBree @shazanfar A Lun @stephaniehicks @drisso1893 οΏ½οΏ½οΏ½
π https://t.co/r36qlakRJe
Our latest preprint on the @Bioconductor #SpatialExperiment infrastructure is out!
New class release on BiocDevel soon! π
I want to thank all the authors but special thanks to @lmwebr @CrowellHL for putting so much work in such a small amount of time!
https://t.co/9wI2JJmHXy
βHojoki Terminalβ - an #installation and '#spatialexperiment' inspired by Kamo no Chomei's famous 13th century text "Hojoki" ("Ten-Square-Foot Hut"), on view now @artgalleryofsa lawns by @adlarchitecture PhD candidate Richard Le Messurier and A/Prof @julianworrall
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