Question about the depth

rrwick / Unicycler

hybrid assembly pipeline for bacterial genomes

GNU General Public License v3.0

561 stars 131 forks source link

Question about the depth #168

Open yuqing-feng opened 5 years ago

yuqing-feng commented 5 years ago

I have a wondering that why the depth in the file assembly.fasta in the result could be under 1X. For example, one contig of my results showed that the depth is 0.80X.

RunhangShu commented 3 years ago

I have the same issue. Mine is 1X.

RunhangShu commented 3 years ago

Hi, I figured it out. This is one sentence copied from Unicycer github: "Unicycler normalizes the depth of contigs in the graph to the median value. This typically means that the chromosome has a depth near 1x and plasmids may have different (typically higher) depths." https://github.com/rrwick/Unicycler