Where communities thrive

Join over 1.5M+ people
Join over 100K+ communities
Free without limits
Create your own community

Explore more communities

OBF/BOSC_community

People

Repo info

Activity

Peter Cock

@peterjc

That sounds promising, hopefully Spencer can work this out for BioJava, and I can follow their example ;)

Michael R. Crusoe

@mr-c

Also see https://twitter.com/stdruskat/status/1166609224593547264 @peterjc @mkuzak @sbliven @yochannah

Mateusz Kuzak

@mkuzak

that looks good :)

Monica Munoz-Torres

@monicacecilia

You guyyyyys, I just want to say that ever since BOSC 2019 brought Nicky Mulder to my field of view, I haven’t stopped catching eye of her awesomeness. I’m listening to another talk from her right now, about her work with the team at H3Africa https://h3africa.org/
:raised_hands:

Tony Yang

@tonyyzy

Some recordings of talks are available on ISCB's youtube channel now!

Raony Guimaraes

@raonyguimaraes

@tonyyzy awesome!

Tony Yang

@tonyyzy

https://www.youtube.com/watch?v=yUpuOXnDOi4&list=PLmX8XnLr6zeHofbRXbVg0vShC5RwuElj4

Some videos are private, maybe the presenter didn't sign the documents?

Monica Munoz-Torres

@monicacecilia

You are correct, Tony. If the presenter has not given consent, the video will show up as private. :(

Yo Yehudi

@yochannah

(so if you're reading this chat and you want to share your video, make sure you have signed consent to share it :D )

Nomi Harris

@nlharris

@khokamp emailed all the authors yesterday asking them to sign the consent form if they’d like to to share the video of their talk.

Spencer Bliven

@sbliven

I hope the #eLifeSprint today and tomorrow goes well, @emmyft! I haven't had a chance to add the zenodo API to our release process yet. I'll be interested to hear if the sprint has any suggestions for making that process easier!

Spencer Bliven

@sbliven

Here's a potential funding opportunity for open source projects: https://chanzuckerberg.com/rfa/essential-open-source-software-for-science/

Bob Hanson

@BobHanson

Thank you, Spencer!

Yo Yehudi

@yochannah

Hey, dark plains!

Ben

@BenjaminHCCarr

any updates on BOSC/GCC 2020?
Looking to get my conference requests in

yes, I have checked both websites, but no prices / suggested hotels, etc yet

Nomi Harris

@nlharris

Hi Ben, thanks for checking! The dates are all set but the BCC organizers are still working on registration prices and hotels—should be up soon!

Ben

@BenjaminHCCarr

Hi @nlharris! Thanks for the reply, trying to get all my ducks in a row and get my request in early so I can make it this year, BOSC2018 was such a great experience (save Bastian stealing my raffle-headset)

Monica Munoz-Torres

@monicacecilia

:laughing:

Ben

@BenjaminHCCarr

Someone thank Morgan for the website update for me!

Just one question, and it's silly/stupid, or at least unlikely...
Is the student housing $90 a night or $90 for the week?
As if it is $90 for the week you're going to sell out fast
https://bcc2020.github.io/location/#lodging

Oh @morgantaschuk is here, just not tab-completing! Thank you!

Monica Munoz-Torres

@monicacecilia

Hi Ben.
I’d assume it is per night.
I assume this, considering that the other hotels are listed ‘per night’ on the ‘rate' line.
Otherwise, that would be cheapest uni conference housing I have ever heard of in my life. :smile:

Nomi Harris

@nlharris

It is per night. We will make that clearer on the website.

Morgan Taschuk

@morgantaschuk

I'll do it!

Ben

@BenjaminHCCarr

@monicacecilia like I said, silly question as the others were per night, just needed clarifying, as if it was per week I was staying in a dorm!

thanks @morgantaschuk

Morgan Taschuk

@morgantaschuk

Done

Nomi Harris

@nlharris

Thanks, Morgan, and thank you Ben for bringing that to our attention. We want to be clear!

Spencer Bliven

@sbliven

Hey, maybe someone in this community could help me with this. We have a spreadsheet with a bunch of drugs/compounds that might bind SARS-CoV-2. Are there any quick/easy places to deposit that that might lead to it being found and used by other groups?

Currently my best idea is to tweet a google doc link, but surely there is something better if only I knew about it

Kaushik Ghose

@kaushik-work

I don't know, presumably you've have already checked if the NIH has a repository. I know the NIH has several repositories for genomic data.

Spencer Bliven

@sbliven

I searched a little but I'm not even sure what to look for. I worry this might just be one of the places where data that doesn't fit in one of the big categories just becomes unsearchable.

Kaushik Ghose

@kaushik-work

The only that comes to mind is, if you don't care about how it is used, you could find somewhat senior scientists at different pharma companies and email that the sheet. Oddly, I see so many scientists on twitter, putting it out on twitter may be a way to get attention. One thing to keep in mind is if it does become popular, there will be problems if people try and experiment on themselves with compounds on that list (like happened with Quinine).

Spencer Bliven

@sbliven

yeah, something to keep in mind

Yo Yehudi

@yochannah

I might ask in the virtual biohackathon slack channel? https://join.slack.com/t/virtualbiohac-xt62674/shared_invite/zt-cuur40oj-wdrVz50NocwVrH7vgKTdPg

Michael R. Crusoe

@mr-c

@sbliven also share with https://crowdfightcovid19.org/

Emmy Tsang

@emmyft

:wave: Hope you're well and healthy– just want to let you know that the eLife Innovation Sprint is happening Sep 2–3 in Cambridge, UK (or potentially online... we're watching the situation and learning from the online hackathons!).

This is a collaborative hackathon where researchers, developers, designers, etc work together to develop open prototypes to change the ways we communicate and share research. More info on https://sprint.elifesciences.org

We're calling for project proposal submission until April 13! It's a great opportunity to recruit contributors to your open projects, and to connect with folks passionate about open science and changing research culture. Please don't hesitate to DM me if you have any questions. Thank you and take care (:

Nomi Harris

@nlharris

@emmyft Thanks for reaching out! We also got your email, and will discuss with the OBF Board the next time we meet! I hope you and your family and colleagues are all well.

@sbliven I shared your question with my coworkers, and they had some suggestions—I emailed you at your gmail address.

Michael L Heuer

@heuermh

@sbliven if you can present those data as an annotation track, this might be another good place for them

http://genome.ucsc.edu/goldenPath/newsarch.html#040320

Michael L Heuer

@heuermh

@sbliven COVID-19 Crowd Generated Gene and Drug Set Library https://amp.pharm.mssm.edu/covid19/

Kaushik Ghose

@kaushik-work

Folks, anyone here used the ART read simulator? I'm trying to figure out 1. if there is a threading options (or does it automatically use multiple threads) and 2. If there is a way to have the read pos data be placed in the qname, instead of a separate alignment file. Thank you!

Nomi Harris

@nlharris

Greetings, BOSC Community! As you’ve no doubt heard, BOSC 2020 will be part of the Bioinformatics Community Conference (BCC2020), and will take place online July 19-21.
Abstract submission is now open (actually, it opened on April 1 but we didn’t advertise it widely) and closes on April 30. Instructions and link to submit on EasyChair here: https://www.open-bio.org/events/bosc/submit/ 🍐🍐🍐

David Enoma

@davidenoma

I might ask in the virtual biohackathon slack channel? https://join.slack.com/t/virtualbiohac-xt62674/shared_invite/zt-cuur40oj-wdrVz50NocwVrH7vgKTdPg

No more working link

Nomi Harris

@nlharris

@OBF_BOSC now has 1990 followers on Twitter. I’m hoping we can get to 2020 followers before the conference!

Yo Yehudi

@yochannah

how have you not tweeted that from the obf_BOSC account? :laughing:

Nomi Harris

@nlharris

ok, done :-)