BioNano Genomics are holding a webinar on October 12th about 'Hybrid Scaffolds' [Link]


The Irys platform by BioNano Genomics seems to be a useful tool by which to help assess the completeness and contiguity of genome assemblies. I noticed today that they are holding an webinar which may be of interest some of the readers of this blog. From the webinar registration page:

Please join us for our Hybrid Scaffold webinar. We will discuss the applications of the software, which include the building of longer contigs, validation of existing contigs, and acquisition of novel map level information. Experimental design considerations will be reviewed for ideal data integration. We will walk through each stage of Hybrid Scaffold troubleshooting data optimization and pointing out files of interest.


Financial disclaimer: I do not own shares in any biotechnology company.

How to sequence and assemble a large eukaryote genome with long reads in 2015 [Link]

If you have any interest in the latest methods of DNA sequencing and/or genome assembly, you really owe it to yourself to be following Lex Nederbragt's excellent In between lines of code blog. Today's post offers some useful advice:

Main advice: bite the bullet and get the budget to get 100x coverage in long PacBio reads. 50-60x is really the minimum.

Slides: Thoughts on the feasibility of Assemblathon 3

The slides below represent the draft assembly version of the talk that Ian Korf will be giving today at the Genome 10K meeting. I.e. these are slides that I made for him to use as the basis of his talk. I expect his final version will differ somewhat.

After I made these slides I discovered that two of the species that I listed as potential candidates for Assemblathon 3 already have genome projects. The tuatara genome project is actually the subject of another talk at the Genome 10K meeting, and a colleague tells me that there is also a California condor genome project too.