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A simple sanity check for invalid input values #123

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A simple sanity check for invalid input values #123

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11 changes: 10 additions & 1 deletion R/copykat.R
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Expand Up @@ -37,7 +37,16 @@ start_time <- Sys.time()

print("step1: read and filter data ...")
print(paste(nrow(rawmat), " genes, ", ncol(rawmat), " cells in raw data", sep=""))


# Check for invalid values in the matrix
if (any(is.nan(rawdata))) {
stop("Error: The input matrix contains NaN values.")
}

if (any(rawdata < 0, na.rm = TRUE)) {
stop("Error: The input matrix contains negative values.")
}

genes.raw <- apply(rawmat, 2, function(x)(sum(x>0)))

if(sum(genes.raw> min.gene.per.cell)==0) stop("none cells have more than min.gene.per.cell")
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