Can any one tell how to set the expected coverege parameter in velvet denovo assembly , if i have the illumina reads of 0.1x cov.
-
-
Take a look at section 5.2 and 5.3 of the velvet manual:
5.2 Choice of a coverage cutoff (14)
5.3 Determining the expected coverage (16)--
Senthil Palanisami -
hi ,thanks for your reply...From the manual it is stated that with reference to the graph the expected cov is calculated as 14x ,so what i understood is we should take the value of the highest peak.am I right ?Comment
-
You could always just use "-cov_cutoff auto" (take a look at the manual), but I prefer to avoid magic when possible.
I would make the graph and use it as a starting point, although I recommend then tweaking the parameters and seeing what you get (especially do'able since it is done in the second step, velvetg).--
Senthil PalanisamiComment
-
The immune system’s power comes from its genetic diversity, allowing myriad threats to be neutralized through first recognizing foreign antigens. That diversity is also what makes the immune system so difficult to study. Recent advances in sequencing technology and computational biology, however, are giving researchers new tools to understand immune responses and immune-related diseases in greater detail.
This convergence of genetics, immunology, and computation...09-01-2026, 05:41 AM
Comment