Error Running Sequenza Extract

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I am running sequenza.extract on a binned compressed seqz file.

Here is the output:

Processing [name here]: Error in data.frame(chrom, pos,, stringsAsFactors = FALSE) : arguments imply differing number of rows: 109, 0 In addition: Warning message: In numericChrom(chrom) : NAs introduced by coercion 1 variant calls. 1 copy-number segments. 109 heterozygous positions. 7704 homozygous positions.

I would greatly appreciate your help in resolving this issue.

Thank you very much.

Comments (1)

  1. Francesco Favero

    Can you give me some more information on the binned seqz you are trying to process? Eg How did you process it, how big is it and what’s the chromosome names in it (from your log I can’t see a proper chromosome name where I expect it to be)

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