Does anyone know any software that will close gaps between contigs using Solexa mate-pair data (insertion ~2500kb)?
-
-
Are you saying u can generate reads with an insert size of 2500kb? -
Woops! 2500b
)
MComment
-
We do...
At the Sanger Insitute, we developed some software which is not published yet for filling the gaps using solexa reads. Is working really well, and it let you close around 60% of the gaps (in average). We haven't test it using that length of insert size but the projections tell us that it would close more gaps with larger insert sizes.
Also we have things for error correction that uses solexa reads too.
Contact me if you want more details.Comment
-
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...10-30-2026, 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
Comment