gophers analysing genomes

[Dan Kortschak]

The genome of the New Zealand 'lizard', the tuatara[1], has just been
sequenced and published in Nature[2,3].

The analysis of the genome included an examination of the repetitive
sequences within the genome. The engine for finding novel repeats for
this analysis is written in Go.

Gophers analyse reptiles' genomes.

[1]https://en.wikipedia.org/wiki/Tuatara
[2]https://www.nature.com/articles/s41586-020-2561-9
[3]https://www.nature.com/articles/d41586-020-02063-4

[Sebastien Binet]

‐‐‐‐‐‐‐ Original Message ‐‐‐‐‐‐‐

On Thursday, August 6, 2020 9:16 AM, 'Dan Kortschak' via golang-nuts <golan...@googlegroups.com> wrote:

> The genome of the New Zealand 'lizard', the tuatara[1], has just been
> sequenced and published in Nature[2,3].
>
> The analysis of the genome included an examination of the repetitive
> sequences within the genome. The engine for finding novel repeats for
> this analysis is written in Go.

Nice work!

Was this done with (parts of?) biogo or with a set of ad hoc Go packages?

-s

[Dan Kortschak]

The code that did the repeat identification was actually the motivation
for writing bíogo and was the reason I started working in Go.

Dan

[George Hartzell]

[sorry for the late reply]

Dan, this is really cool! In a speed-reading of the Nature articles
I couldn't find any links out to the code you used. I'm familiar with
the BioGo repos[1], is the specific analysis code published somewhere?

Thanks and congrats!

g.

[1]: https://github.com/biogo