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Hi!
Recently I'm using pyDNase to analyze some ATAC-seq data. It's a very convinient tool!
However, I noticed that in the original ATAC-seq paper it said: "all reads aligning to the + strand
were offset by +4 bp, and all reads aligning to the – strand were offset −5 bp." But in https://github.com/jpiper/pyDNase/blob/master/pyDNase/__init__.py the corresponding code is:
ifATAC:
self.loffset=-5self.roffset=+4
I'm new to ATAC-seq but the code doesn't seem to agree with the ATAC-seq paper. Am I understanding wrong?
The text was updated successfully, but these errors were encountered:
Hi!
Recently I'm using pyDNase to analyze some ATAC-seq data. It's a very convinient tool!
However, I noticed that in the original ATAC-seq paper it said: "all reads aligning to the + strand
were offset by +4 bp, and all reads aligning to the – strand were offset −5 bp." But in https://github.com/jpiper/pyDNase/blob/master/pyDNase/__init__.py the corresponding code is:
I'm new to ATAC-seq but the code doesn't seem to agree with the ATAC-seq paper. Am I understanding wrong?
The text was updated successfully, but these errors were encountered: