Reproductivity #5

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1. yulijia commented on Mar 24, 2024

   

   yulijia

   on Mar 24, 2024

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   Hi, the sce.rds file is a SingleCellExperiment object. I can load the data in R.

   >library(scCCESS)
   >data(sce, package = 'scCCESS')
   >sce
   class: SingleCellExperiment 
   dim: 23433 1000 
   metadata(0):
   assays(1): counts
   rownames(23433): 0610005C13Rik 0610007C21Rik ... l7Rn6 zsGreen_transgene
   rowData names(0):
   colnames(1000): B12.MAA000938.3_8_M.1.1 O20.MAA000614.3_10_M.1.1 ...
     E10.D043526.3_39_F.1.1 H1.MAA000508.3_9_M.1.1
   colData names(2): cellTypes sizeFactor
   reducedDimNames(0):
   mainExpName: NULL
   altExpNames(0):
   

   I am not sure the reason why you cannot view it?
2. TimedDinner commented on Apr 5, 2024

   

   TimedDinner

   on Apr 5, 2024

   Last edited by TimedDinner

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   Is this the file with the raw data used for analysis? I am trying to replicate your results using the dataset from this repo. Is it possible for me to acquire the csv file of the data you used?
3. yulijia commented on Apr 5, 2024

   

   yulijia

   on Apr 5, 2024

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   Hi,

   sce.rds is real scRNAseq demo data that you can use to run the scCCESS package