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JackieHanLab / SenCID

Senescent Cell Identification
MIT License
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About how to run SenCID #4

Open CCGOGO12 opened 4 months ago

CCGOGO12 commented 4 months ago

Hello, when I run a singlecell data with cell annotation, should I run this singlecell data as a whole or split it into different cell types and run them separately.

grimwoo commented 4 months ago

Hi, @CCGOGO12 , I cannot import the SenCID after the installation of required versions of packages. Could you please let us know all the versions of packages that you installed?

SherryMiyano commented 4 months ago

Hello, when I run a singlecell data with cell annotation, should I run this singlecell data as a whole or split it into different cell types and run them separately.

Hi, thanks for the support of SenCID!

There are two ways, one is to separate the cell types before running SenCID package; the other is to run SenCID on the whole data with all 6 SID models (which is by default), and when you get the output, you may separate the different cell types into different SIDs according to the 'recSID' results (see the tutorial box [7]) and refer their respective SID scores.