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miRTop / miRTOP.github.io

project for small RNA standard annotations
http://mirtop.github.io
MIT License
3 stars 2 forks source link

Join the team #1

Open lpantano opened 8 years ago

lpantano commented 8 years ago

Please, comment in this issue if you want to join to this project.

keilbeck commented 8 years ago

Hi Lorena, I am interested in being part of this project so I can keep on top of recommendations and add to SO where necessary.

lpantano commented 8 years ago

Nice @keilbeck, I think you are an owner of the miRTop organization, you can check if you have permissions to change files maybe trying to modify: https://github.com/miRTop/incubator/blob/master/isomir_naming.md

If not I will add you all again to all repositories :) Will contact all of you by github to start working here and get people involved! Thanks

farazfazli commented 8 years ago

I'd like to join!

lpantano commented 8 years ago

Hi @farazfazli

Happy to hear you are interested! Can you tell us about you and what is your expertise? :) That way I can add you to the projects you can contribute.

thanks so much for your time!

farazfazli commented 8 years ago

Sure! I'm 19 and love coding. I have experience with Java, Go, and Devops. I make Android apps using Java and backend server-side apps with Go. In my free time, I organize the NYC Mobile App Dev Meetup.

lpantano commented 8 years ago

Hi, sorry for the delay, i was in a conference. Ok, I think you can help in the development team. I will prepare some issues that help you to create some PR to the code. Downside we are using python :) Any special interest in this community? because we come from biology, don't know if you are interested on that somehow :)

farazfazli commented 8 years ago

@lpantano That sounds great, would love to help. I have experience with Python, but haven't worked with it in a while. I am interested in this community because I always liked the concept of using coding to aid other fields such as biology.

I am not the strongest in the field of biology, but I have a passion for coding, so I hope that I am able to learn more as well as help further the vision of the project. :)

lpantano commented 8 years ago

@farazfazli, that's cool!

We need help in the issues #3 and #4 here: https://github.com/miRTop/mirtop/issues

I think is a good way to start, just try to install it and run the example that is described in the README. The idea is to fix according because probably there are issues with requirements or wrong documentation.

I will try to add more info to the issues this week! welcome!

farazfazli commented 8 years ago

Awesome, got it! @lpantano

m1guelpf commented 7 years ago

Hi!

I've created a tool called OrgManager that allows you to generate links to join a Github organization! (You may want to get more info at the github repo or see it in action.)

Some organizations like Open Source Design are using it to make joining faster!

It even has an API, if you want to integrate it with your application! (Api docs)

What do you think?

PD. If you think it could have other nice features, just open an issue on the repo!

lpantano commented 7 years ago

cool, thanks for the suggestion. I will start using it.

ivlachos commented 7 years ago

Hi! This is a very interesting project and I'd be happy to be onboard.

mhalushka commented 7 years ago

I am happy to be involved in this project.

gurgese commented 7 years ago

Ciao Lorena, this is Gianvito Urgese Postdoc from Politecnico di Torino. I'm working in the design of tools for miRNA and isomiR detection in sRNA-Seq data (my tool is called isomiR-SEA).

Bastami commented 7 years ago

Hi! This is a great project. I 'd be happy to contribute. Milad Bastami, PhD of Medical Genetics. My interest is the application of bioinformatics in identification and prioritization of miRNA-related polymorphisms which contribute to human disease. Unfortunately, I don't have python experience yet. But I worked a little bit with linux, command line tools, galaxy and R bioconductor.

lpantano commented 7 years ago

cool! thanks!. We are working currently in defining a specific format for small RNA analysis:

https://github.com/miRTop/incubator/blob/master/format/definition.md

The last issues are related to that:

https://github.com/miRTop/incubator/issues

Welcome!

sinanugur commented 7 years ago

Hello to all, I would like to contribute as well.

I have a PhD in Biotechnology and familiar with Python, R and Linux. I am interested in non coding RNAs.

lpantano commented 7 years ago

awesome, happy to add you, can you give us your affiliation so I can modify the index page of the project.

thanks!

On Jun 23, 2017, at 9:53 AM, Sinan Uğur Umu notifications@github.com wrote:

Hello to all, I would like to contribute as well.

I have a PhD in Biotechnology and familiar with Python, R and Linux. I am interested in non coding RNAs.

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/miRTop/miRTOP.github.io/issues/1#issuecomment-310671269, or mute the thread https://github.com/notifications/unsubscribe-auth/ABi_HFdNkG7M-shUxx5UIHzQxfyz3Pmzks5sG8M9gaJpZM4HQJQL.

haebhardt commented 7 years ago

Affiliation: Systems Biology Ireland, University College Dublin

On 23 June 2017 at 17:11, Lorena Pantano notifications@github.com wrote:

awesome, happy to add you, can you give us your affiliation so I can modify the index page of the project.

thanks!

On Jun 23, 2017, at 9:53 AM, Sinan Uğur Umu notifications@github.com wrote:

Hello to all, I would like to contribute as well.

I have a PhD in Biotechnology and familiar with Python, R and Linux. I am interested in non coding RNAs.

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub < https://github.com/miRTop/miRTOP.github.io/issues/1#issuecomment-310671269>, or mute the thread https://github.com/notifications/unsubscribe- auth/ABi_HFdNkG7M-shUxx5UIHzQxfyz3Pmzks5sG8M9gaJpZM4HQJQL.

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/miRTop/miRTOP.github.io/issues/1#issuecomment-310707712, or mute the thread https://github.com/notifications/unsubscribe-auth/AbH_IpSZtS8wnUFVuJ31zniku012jnP2ks5sG-OVgaJpZM4HQJQL .

-- H. Alexander Ebhardt, Ph.D. Systems Biology Ireland University College Dublin Belfield, Dublin 4, Ireland Phone +353-1-716 6326 Email: h.a.ebhardt@ucd.ie h.ebhardt@ucd.ie http://orcid.org/0000-0001-9019-8388 http://www.ucd.ie/sbi/ http://www.ucd.ie/research/people/medicine/drh.alexanderebhardt/

Electronic mail to, from, or within the University may be the subject of a request under the Freedom of Information Acts 1997 and 2003.

sinanugur commented 7 years ago

And mine is; Department of Research, Cancer Registry of Norway, Oslo, Norway.

BTW, I want to contribute especially for programming. Where should I start? Current issues perhaps ??

lpantano commented 7 years ago

Thanks @sinanugur, we are working on the definition of the format. After that, we can implement this into the code. Right now, the old code is here:

https://github.com/miRTop/mirtop

You can run the examples to get use to it, and read the code to get an idea of the structure. The main goal in a couple of months will be to implement the GFF output discussed here:

https://github.com/miRTop/incubator/issues

and

https://github.com/miRTop/incubator/blob/master/format/definition.md

I'll ping you specifically when we start working on that! Thanks a bunch!

shruthibandyadka commented 7 years ago

Hi @lpantano My name is Shruthi Bandyadka. I'm a Bioinformatician based in Cambridge, MA working on a miRNA analysis pipeline. I work extensively with Python & JavaScript and I'm interested in contributing to this project. Please let me know how to proceed further. Thanks

lpantano commented 7 years ago

Hi @sbb25

happy you are on board! the best place to start is the issue list here:

https://github.com/miRTop/incubator/issues

The two last are the most active. As well, we'll need help with the development of the tool in a couple of month!

Do you want to appear with any particular affiliation?

cheers

shruthibandyadka commented 7 years ago

Sounds good! Please add 'Partners Personalized Medicine, Cambridge MA' to my affiliation. Thank you.

xbdr86 commented 6 years ago

Hi @lpantano My name is Xavier. I'm a postdoc at NCI, working on a miRNA 5' miscleavage and 3' tailoring-and -trimming. Our work extensively experimental but we have some thoughts (and scripts) on their bioinformatic analysis. We are interested in contributing to this project by taking some of the ideas that are being discussed and our suggestions. Thanks

lpantano commented 6 years ago

Thanks a lot for chime in.

I added you to the main project repo.

Can you tell me how you would like to being mention: Full Name and Affiliation?

Cheers

haebhardt commented 6 years ago

Hi,

I don't think I contributed much to be honored with mentioning on the project page.

Kind regards,

On 15 May 2018 at 22:01, Lorena Pantano notifications@github.com wrote:

Thanks a lot for chime in.

I added you to the main project repo.

Can you tell me how you would like to being mention: Full Name and Affiliation?

Cheers

— You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub https://github.com/miRTop/miRTOP.github.io/issues/1#issuecomment-389312109, or mute the thread https://github.com/notifications/unsubscribe-auth/AbH_In2473MoWHHAESSbw9zNoj1Wgeazks5ty0IsgaJpZM4HQJQL .

-- H. Alexander Ebhardt, Ph.D. Systems Biology Ireland University College Dublin Belfield, Dublin 4, Ireland Phone +353-1-716 6326 Email: h.a.ebhardt@ucd.ie h.ebhardt@ucd.ie http://orcid.org/0000-0001-9019-8388 http://www.ucd.ie/sbi/research/researchgroups/ebhardtgroup/ http://www.ucd.ie/sbi/ http://www.ucd.ie/research/people/medicine/drh.alexanderebhardt/

Electronic mail to, from, or within the University may be the subject of a request under the Freedom of Information Acts 1997 and 2003.

xbdr86 commented 6 years ago

Xavier Bofill, National Cancer Institute (NCI)

lpantano commented 6 years ago

Thanks @xbdr86, I'll add you now. Please, let me know anyway we can work together.

@haebhardt , no worries, I'll remove you now. If you have any tips at some point about the definition we put together here: https://github.com/miRTop/incubator/blob/master/format/definition.md let me know. I am sure you'll have some great ideas.

Cheers

pythonlo7er commented 2 years ago

I want to join!