About BatchQC packages error
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Entering edit mode
6.1 years ago
Jun • 0

I received this error message:

Error in if (var(data.matrix[i, cond2[[j]]]) == 0) { : missing value where TRUE/FALSE needed

What does it means.

I followed BatchQC examples,and then created a list of condition_batch file.

data(example_batchqc_data)
batch <- batch_indicator$V1
condition <- batch_indicator$V2
batchQC(signature_data, batch=batch, condition=condition,
        report_file="batchqc_signature_data_report.html", report_dir=".",
        report_option_binary="111111111",
        view_report=FALSE, interactive=TRUE)
Batch-effect R • 1.3k views
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Entering edit mode

I get the same error!

A google search suggested it might be due to missing values (NAs), however I have none. Also used the raw data (instead of log2) and performed a quantile normalization.

Also I checked if all samples in the expression matrix are annotated: they are.

But still I get the same error. Any help would be MUCH appreciated.

Thanks!

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