Have you considered using abyss?
-
I'm in the process of doing just that (1GB genome done with Illumina data), I'll post my results.
I'll first have a go with SOAPdenovo, see where that leads me.Leave a comment:
-
The best de novo assembly tool is velvet but also euler-sr gives good performances. I think is quite hard assembly a so large amount of data, I think you are oblige to divide it into several sets and assembly independently and then try to combine the results togetherOriginally posted by bioinfosm View PostLeave a comment:
-
a GB genome with SE PE data
1gb + genome, 100gb + sequence data (solexa)
What are people's thoughts for de novo assembly? RAM being the limiting issue, and of course the speed and accuracy if less of RAM is used
and there are a lot of deNovo assembly tools which I was unfortunately not able to follow .. so your feedback is very welcome.
thanks
-
NGS has revolutionized clinical microbiology by offering new ways to identify and surveil pathogens without prior knowledge of the target. One popular approach is 16S rRNA and ITS amplicon sequencing, which targets specific microbial markers. But studies are increasingly incorporating shotgun metagenomics, a technique that sequences all DNA from a sample without targeting specific microbial markers. This approach allows more detailed taxonomic classification, detection...Yesterday, 06:46 AM -
Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?
Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating...10-14-2026, 09:55 AM
Leave a comment: