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feiyoung / PRECAST

an efficient data integration method for multiple spatial transcriptomics data with non- cluster-relevant effects such as the complex batch effects.
GNU General Public License v3.0
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Applying PRECAST to 10x Xenium data #15

Open joonlee3 opened 1 year ago

joonlee3 commented 1 year ago

Hi,

I am planning to apply PRECAST to our internal 10x Xenium data (breast cancer tissue sections for 4 different patients).

I am wondering if I need to set up parameters when I create an PRECAST object (e.g. gene.number, premin.spots, premin.features, postmin.spots and postmin.features). Please advise me if you have prior experiences. Thank you.

Best, Joon

feiyoung commented 1 year ago

You can try using the default settings.