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Vivianstats / scImpute

Accurate and robust imputation of scRNA-seq data
https://www.nature.com/articles/s41467-018-03405-7
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Input and Output #25

Open Winnie09 opened 5 years ago

Winnie09 commented 5 years ago

Dear author,

Thanks for developing the software! I have a few questions but did not find clear answer from your paper:

  1. is the input a count matrix?
  2. is the output a count matrix? Has it been normalized by library size, or log2-transformed?
  3. I tried to use a raw count matrix as an input, but find in output matrix there are some values as large as 400+ and three quantiles are between 0 and 1?

Thanks!

arcolombo commented 4 years ago

If I've done batch correction and log-2 normalization on my experiment data, can I input the batch-normalized counts into scIMpute?