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Join the team (post here to be added to the nf-core team) #3

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ewels opened this issue May 7, 2018 · 58 comments

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@ewels
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commented May 7, 2018

Please add a comment below if you would like to be added to the nf-core community.. Everyone is welcome!

Note: After you post here, we will email you an invitation through github to join the bioconda team. Click the link in that invitation in order to be added.

ps. I totally stole this idea (and many others) from bioconda.. Thanks guys!

@HadrienG

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commented May 21, 2018

Hej Phil!

I'll start developing a nextflow pipeline for metagenome assembly and binning pretty soon, and I thought that would be a good fit for nf-core (also it will force best practises on me 😛).

Would you have me in the org? 😄
Thanks in advance.

@ewels

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commented May 21, 2018

Brilliant! Absolutely - I'll add you now.. Don't forget to join the gitter chat too :) https://gitter.im/nf-core/Lobby

@agduncan94

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commented Sep 5, 2018

Hey,
I work on Dockstore and we are adding support for Nextflow workflows in an upcoming release. It would be awesome to become a part of this organisation so that we can add high quality Nextflow workflows to our site for people to use, and also improve our support of Nextflow workflows.

@pditommaso

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commented Sep 5, 2018

Excellent news!

@ewels

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commented Sep 5, 2018

As Paolo says, excellent news! Great to have you on board - I just sent you an invite. As said above, feel free to come and chat on the Gitter channel, plus there's also a new mailing list if you prefer.

@ewels

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commented Sep 5, 2018

Oh, and we now have a list of contributors on our website! http://nf-co.re/about

So if you want to add yourselves there, that would be cool. It's just a YAML document, so pretty easy to submit a PR 👍

@HadrienG - would be nice to add SLu there too!

@denis-yuen

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commented Sep 7, 2018

Hi,
I work on Dockstore as well and would like to be added in order to help with some debugging.
Thanks!

@dfornika

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commented Sep 26, 2018

Hello, could I join? I'm working on bioinformatics pipelines at the BC Centre for Disease Control Public Health Lab.

@ewels

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commented Sep 26, 2018

Hi @dfornika - absolutely! You should have an invite in your inbox. Remember to flick your membership to public on the nf-core people page if you want people to know. It would be fab if you could add yourself to the contributors page too (instructions above) - we're looking a little European at the moment so it would be good to get some map pins in over the pond! Otherwise just drop us a line on gitter if you have any questions or suggestions! And welcome to the team! 😀

@alaincoletta

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commented Oct 1, 2018

Hi Phil, can you send us an invite to dev@lifebit.ai? Looking forward to contribute with our pipelines! Best. Alain

@ewels

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commented Oct 1, 2018

Hi @alaincoletta! I can't find a GitHub account with that email address. It works best if we add individuals to the community - should I add you? (@alaincoletta)

@PhilPalmer

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commented Oct 4, 2018

Hi @ewels, I work at Lifebit with alaincoletta. Can you please add me to the community as well @pprieto. We're planning to add this DeepVariant pipeline first

@ewels

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commented Oct 4, 2018

Cool, sounds great! I've just invited you both. Come and give us a nudge on https://gitter.im/nf-core/Lobby when you're ready :)

@PhilPalmer

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commented Oct 4, 2018

@ewels, great, thanks for your prompt response. I'm ready now so just sent a message on the Gitter chat as well.

@alaincoletta

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commented Oct 5, 2018

Thanks Phil! Please add me too @alaincoletta
Cheers

@apeltzer

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commented Oct 5, 2018

Invited you @alaincoletta

@glormph

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commented Oct 18, 2018

Knock knock. Proteomics :)

@apeltzer

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commented Oct 18, 2018

Knock knock - send you an invite! Welcome :-)

@likelet

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commented Oct 18, 2018

@ewels Hi Phil, can you plz send me an invite, i'd like to join the team to contribute my pipe as well. I worked at bioinfomatics center of Sun Yat-sen University Cancer Center (Guangdong, China) and am interested in cancer multi-omics integration analysis, also write some pipes.

@apeltzer

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commented Oct 18, 2018

I'll send you one in 5 secs

@ignaciot

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commented Oct 19, 2018

Hi Phil! I'm a research assistant at the Dowell lab, at University of Colorado, Boulder. I've been working with one of my labmates on a pipeline for nascent transcription assays (GRO-seq, PRO-seq, etc) using Nextflow. Would love to share it here, besides our public GitHub repo. Mind if I join?

@ewels

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commented Oct 19, 2018

Welcome aboard! I've just sent an invite. Please see the new documentation describing how it works to add a new pipeline.

Also, calling all new recruits - @ignaciot @likelet @glormph @PhilPalmer @dfornika - it would be fab if you could add a PR to list yourselves as a a contributor! It's just a case of adding a few lines of YAML in this file - fork the repository, make the change and open a pull request. If you're feeling adventurous then you can also add a logo to appear on the about and homepage, but that's optional.

@ignaciot

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commented Oct 19, 2018

Thanks, Phil! I'll go over all of this over the next few days, and let you know if I have any questions.

@olavurmortensen

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commented Nov 1, 2018

I'm a PhD student at the University of the Faroe Islands. I'm planning on developing a pipeline for exomes with linked-reads using 10x Genomics. Basically, I think I will be retrofitting nf-core/exoseq to align reads using Lariat and phase BAM and VCF using a subset of the LongRanger pipeline (both Lariat and LongRanger are developed by 10x Genomics). So I would be pleased to join the nf-core community :)

@apeltzer

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commented Nov 2, 2018

Welcome, @olavurmortensen !

Please also add yourself to the contributor's page and provide a logo for the nf-co.re page:
https://github.com/nf-core/nf-co.re/blob/master/nf-core-contributors.yaml

@cpang429

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commented Nov 21, 2018

Hello! I'm a student interning at the Genome Institute of Singapore where I'm working on developing a a Nanopore pipeline for processing long-read RNA-Seq data that follows the nf-core best practices. I'm looking forward to engaging with the community & to learn more!

@apeltzer

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commented Nov 21, 2018

Welcome :-) I'm adding you in a moment.

@drejom

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commented Feb 5, 2019

Hi, Could I join too? Long time user, hopefully soon to be a contributor

@ewels

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commented Feb 5, 2019

Absolutely! Welcome :) Would be great to get a few more pins on the map for the USA 😀 (see above for instructions)

@ewels

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commented Feb 5, 2019

Hah, sorry - just saw #72 - shouldn't just reply to my emails in order 😆

@jemunro

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commented Feb 14, 2019

Hello, I'd like to join too please. I'm a bioinformatics analyst at the Walter and Eliza Hall Institute of Medical Research in Melbourne Australia. I'm working on a few pipelines for human and pathogen genomics.

@apeltzer

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commented Feb 14, 2019

Hi @jemunro ! Great, just invited you over!

Please sign up for our Slack channel by yourself, you can find the link on the main webpage on the top:

http://nf-co.re/

@mdeloger

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commented Feb 28, 2019

Hi all,

I am bioinformatician at the Institut Curie of Paris (France) and I will start developing a nextflow pipeline for PacBio SEQUEL IsoSeq data. I would like to follow nf-core best practices.

May you invite me to join the team, please ?

Thank you in advance.

@apeltzer

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commented Feb 28, 2019

Hi @mdeloger!

thanks for joining - I'll send you an invite in a minute. Would you please take a minute and also add yourself to our list of contributors! Its just adding a few lines of YAML in this file - fork the repository first, make the change and open a pull request. If you can - it would also be nice to add a logo to appear on the about homepage https://nf-co.re/about :-)

@apeltzer

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commented Feb 28, 2019

Our slack channel is self-invite - on the webpage you'll find a button to sign up (or use this link directly), same for the google group 👍

@FalkoHof

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commented Mar 13, 2019

Hi all,

I am bioinformatician at the Institut Curie of Paris (France) and I will start developing a nextflow pipeline for PacBio SEQUEL IsoSeq data. I would like to follow nf-core best practices.

May you invite me to join the team, please ?

Thank you in advance.

Hey @mdeloger,
I am not part of the nf-core team but just stumbled across your comment. I implemented a crude pipeline for isoseq 3.1 in nextflow which is available here. https://github.com/Gregor-Mendel-Institute/isoseq3 Some things such as the handling/staging in of the .pbi files could be definitively done better, but feel free to fork it or take some inspiration.
Best,
Falko

@apeltzer

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commented Mar 13, 2019

Could port that over here too ;-) @FalkoHof

@FalkoHof

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commented Mar 13, 2019

@apeltzer Sure! A friend actually just pointed me to this thread. I will do a bit of research what you require for your nf-core packages and check how hard it would be to port this over.

@ewels

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commented Mar 13, 2019

Sounds great! I'd recommend starting here: https://nf-co.re/adding_pipelines

@apeltzer

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commented Mar 13, 2019

Doesnt look too bad ;-)

@mdeloger

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commented Mar 14, 2019

@nservant

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commented Mar 25, 2019

Hi all,
Our team is planning to move most of our pipelines to Nexflow.
And I'm sure we have many thing to share on this ;)
Regarding my main focus, I started to write a Nextflow pipeline for Hi-C data analysis based on the HiC-Pro tool. I'll be happy to put this workflow into nf-core.
All the best
Nicolas

@apeltzer

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commented Mar 25, 2019

Hi @nservant! Just sent you an invitation!

Please join the Slack channel (see homepage) and check out our developers documentation https://nf-co.re/guidelines

@roshni-b

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commented Apr 6, 2019

Hello! I am an aspiring bioinformatician currently interning at NASA, developing pipelines for metagenomic data processing. May I also join the team? - Roshni

@ewels

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commented Apr 6, 2019

Hi @roshni-b - absolutely! Welcome :) You should now have an invite to join the GitHub team.

Make sure to also join the slack workspace (get an invite here). We already have some ongoing work around metagenomic pipelines, would be great to hear what you have in mind! The Slack channel #mag is all about the https://github.com/nf-core/mag pipeline for example.

Phil

@apeltzer

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commented Apr 7, 2019

@nservant @mdeloger @roshni-b @jemunro - it would be great if you also yourselves to our webpage as contributors:

It's just adding a few lines of YAML in this file - fork the repository first, make the change and open a pull request. Please also add a logo of your institution to appear on the about page and homepage :-)

@AnnaSyme

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commented May 9, 2019

Hi, could I join? I'm working on pipelines for plant genome assembly. Thanks!

@apeltzer

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commented May 9, 2019

Hi @AnnaSyme !

thanks for joining - I'll send you an invite in a minute. Would you please take a minute and also add yourself to our list of contributors? It's just adding a few lines of YAML in this file - fork the repository first, make the change and open a pull request. If you can - it would also be nice to add a logo to appear on the about homepage https://nf-co.re/about :-)

@szilvajuhos

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commented May 15, 2019

Hullo, could you please let me in? Cheers.

@apeltzer

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commented May 15, 2019

Done!

add yourself to our list of contributors? It's just adding a few lines of YAML in this file - fork the repository first, make the change and open a pull request. If you can - it would also be nice to add a logo to appear on the about homepage https://nf-co.re/about :-)

@olgabot

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commented May 31, 2019

Hello!

@olgabot

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commented May 31, 2019

Added here: #127

@apeltzer

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commented Jun 1, 2019

Welcome, you just received your invitation 👍

@bioinformatist

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commented Jun 5, 2019

Hi my friends,
I'm working on a pipeline for performing meta-analysis on multiple groups of 16S amplicon data. Could you let me in? Thanks!

@apeltzer

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commented Jun 5, 2019

Yes - please have a look at the https://github.com/nf-core/ampliseq pipeline when working with 16S data and help out there / add features if this is possible (or discuss why there is the need for a new pipeline if that doesn't fit what you intend to be doing) .

Would you please take a minute and also add yourself to our list of contributors? It's just adding a few lines of YAML in this file - fork the repository first, make the change and open a pull request. If you can - it would also be nice to add a logo to appear on the about homepage https://nf-co.re/about :-)

@aunderwo

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commented Jun 9, 2019

Please can I be added. I want to submit a bacterial ref mapping and phylo pipeline.

Thanks

@drpatelh

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commented Jun 9, 2019

👍 Would you mind creating a small PR following the instructions in the comment above yours too please? Just means we can add you in official pomp and glory 😄

@apeltzer

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commented Jun 9, 2019

@jburos I took the liberty to add you to nf-core too - please also add your details (if you want to) to the webpage as mentioned above here!

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