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bluenote-1577 / flopp

flopp is a software package for single individual haplotype phasing of polyploid organisms from long read sequencing.
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log output explanation #8

Closed chklopp closed 1 year ago

chklopp commented 1 year ago

Hi,

Is there a documentation for the log information produced by flopp?

Median read length is 179 Binomial adjustment factor is 7.16 Length of genome is 906443 Length of each block is 135

Input genome length is for example quite different from 906443 in my case.

bluenote-1577 commented 1 year ago

Hi Christophe,

Thanks for the issue. This is my bad; I'll update the README and the software so it's less ambiguous. The "read length" here is in terms of SNPS so it looks like the median read has 179 snps contained. The length of the genomes/block are also in terms of SNPs. So this shouldn't be an error in your inputs.

Jim