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removed normalization from LR analysis #142

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Mar 28, 2024
Merged

removed normalization from LR analysis #142

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7 changes: 5 additions & 2 deletions R/get_lr.R
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Original file line number Diff line number Diff line change
Expand Up @@ -86,8 +86,11 @@
}

# normalize the data and extraxt the cpm values
spe <- spacedeconv::preprocess(spe)
spe <- spacedeconv::normalize(spe, method = "cpm")
# spe <- spacedeconv::preprocess(spe)
# spe <- spacedeconv::normalize(spe, method = "cpm")
if (!"cpm" %in% assayNames(spe)) {
stop("Please provide an object with cpm normalized values")

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}

# extract the cpm matrix
# first as matrix and then as df
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