Hi all,
admins are being silent since a lot of time, despite in this period Rosetta@Home is benefiting from a never seen computational power given by a lot of new volunteers due to the coronavirus crisis. It's sad that the community who is contributing with so much effort , time and money spent for equipment and energy has been left alone without any news on how the work is going on, especially the work related to the COVID-19 Workunits.
But there is a glimmer of hope that could explain this silence: is this a preparation for a breakthrough in the future of Rosetta and Rosetta@Home?

I have read something about TrRosetta, and it looks like that the Baker Lab is putting a lot of effort in the development of this new software that will merge the expertise coming from years working for Rosetta and the immense power of Deep Learning (don't forget about the power shown by AlphaFold during the last CASP). This software looks much more powerful than the standard Rosetta, and perhaps this could be the key for a radical revolution in de novo protein design, the dream of David Baker and the IPD.
Now, it is obvious that Rosetta@Home is contributing in some way to this new TrRosetta, just look at the name of a WU I have just received:

DL_energy_landscape_trR_vanilla_5435432132001074_0002_62_fragments_abinitio_SAVE_ALL_OUT_947046_413

It does not require much fantasy to recognize in this name the words "DeepLearning" and "trRosetta".
So I'm curious and I'd like to ask an admin: in which way are we contributing in the development of this new and very promising software?

Moreover, I have a couple more questions:
1) Once the development of TrRosetta will be completed, will this software be considered as a substitute for the classic Rosetta and will the latter became just surpassed or there will be some kind of tasks requesting the classic Rosetta and so eventually the Rosetta@Home infrastructure?
2) If TrRosetta will substitute Rosetta, will Rosetta@Home be shut off or will it be used to run the new software?

So, to sum up: is there any future for Rosetta? Is the Rosetta@Home adventure coming to an end?

Thank you.

Now, it is obvious that Rosetta@Home is contributing in some way to this new TrRosetta, just look at the name of a WU I have just received:

DL_energy_landscape_trR_vanilla_5435432132001074_0002_62_fragments_abinitio_SAVE_ALL_OUT_947046_413

It does not require much fantasy to recognize in this name the words "DeepLearning" and "trRosetta".
So I'm curious and I'd like to ask an admin: in which way are we contributing in the development of this new and very promising software?

Good catch. I am sure they are up to something.

But the news since COVID has actually been more than normal. In other words, don't expect an answer anytime soon.
But they are working on it. It is a good project.

---

Now, it is obvious that Rosetta@Home is contributing in some way to this new TrRosetta, just look at the name of a WU I have just received:

DL_energy_landscape_trR_vanilla_5435432132001074_0002_62_fragments_abinitio_SAVE_ALL_OUT_947046_413

It does not require much fantasy to recognize in this name the words "DeepLearning" and "trRosetta".
So I'm curious and I'd like to ask an admin: in which way are we contributing in the development of this new and very promising software?

Good catch. I am sure they are up to something.

You have some of them too ;) https://boinc.bakerlab.org/rosetta/result.php?resultid=1200970479

But the news since COVID has actually been more than normal. In other words, don't expect an answer anytime soon.
But they are working on it. It is a good project.

Ok, it's good to hear this because I have read many users complaining about the lack of news so I thought that the project was going to be abandoned.[/url]

Ok, it's good to hear this because I have read many users complaining about the lack of news so I thought that the project was going to be abandoned.

Their alter-ego, the Institute for Protein Design, is about the best funded of any that I know of.
https://www.geekwire.com/2019/institute-protein-design-wins-45m-funding-teds-audacious-project/

---

This is the most recent update from Rosetta, AFAIK.

https://twitter.com/RosettaAtHome/status/1260368548976713730 and https://twitter.com/RosettaAtHome/status/1260368892695699457


It wasn't posted at Rosetta@home, only on Twitter.

So I'm curious and I'd like to ask an admin: in which way are we contributing in the development of this new and very promising software?

Moreover, I have a couple more questions:
1) Once the development of TrRosetta will be completed, will this software be considered as a substitute for the classic Rosetta and will the latter became just surpassed or there will be some kind of tasks requesting the classic Rosetta and so eventually the Rosetta@Home infrastructure?
2) If TrRosetta will substitute Rosetta, will Rosetta@Home be shut off or will it be used to run the new software?

If i'm not wrong, TrRosetta will simulate, very well, only ONE kind of simulation (ab initio??)
Rosette simulates a lot of different things

So, to sum up: is there any future for Rosetta? Is the Rosetta@Home adventure coming to an end?

I don't think so

---

Did a small amount of additional digging re trRosetta.

This was helpful:
https://www.nature.com/articles/s41592-020-0779-y

More detail:
https://yanglab.nankai.edu.cn/trRosetta/
https://yanglab.nankai.edu.cn/trRosetta/help/
https://www.pnas.org/content/117/3/1496

I found this interesting: (...wait...it's all interesting)
From https://www.pnas.org/content/117/3/1496
"Abstract
The prediction of interresidue contacts and distances from coevolutionary data using deep learning has considerably advanced protein structure prediction. Here, we build on these advances by developing a deep residual network for predicting interresidue orientations, in addition to distances, and a Rosetta-constrained energy-minimization protocol for rapidly and accurately generating structure models guided by these restraints."

So in trying to wrap my (non-bio) head around this business, it feels like trRosetta is an approach where some new methods have been developed to more efficiently home in on the right protein structures to model, then employ Rosetta to 'turn the crank' on producing a useful detailed model.

It's almost starting to make sense. Maybe this leads to a more efficient use of computing resources?

Very interesting, thank you