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Question: Help to find Volunteer who can review my bioconductor package before submission ?
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gravatar for Jurat Shahidin
2.3 years ago by
Italy
Jurat Shahidin60 wrote:

Dear member of this community:

Since I have involved in bioconductor community, I have got benefits from this sites, thanks a lot to this great community.

developing R package for parsing multiple bed files in R, as my master thesis projects, and I have done first version of my package. To be honest, writing R package is the first things I've ever done so far in R, and I am not experienced R programmer (just few month training in R). So, there might be problem on my packages, as new developer like me, I could not aware where the problem is. Is there any volunteer who are master in R to review and give personal suggestion on my work? I will be grateful if someone want to give contribution on that. Plus, is there any useful tutorial for developing bioconductor package that can help me to make sure the structure of my package ? many Thanks

ADD COMMENTlink modified 2.3 years ago • written 2.3 years ago by Jurat Shahidin60
2

I don't really have the bandwidth to review such a work, but perhaps you can update your post to describe what was missing from the functionality already available in Bioconductor -- where the first place most people would look to in order to import a BED file would be the rtacklayer package, in this way people could know what to look for to comment on in your package.

Also, there are many places to go to learn how to develop a package. Some of these include:

ADD REPLYlink modified 2.3 years ago • written 2.3 years ago by Steve Lianoglou12k

Thanks a lot

ADD REPLYlink written 2.3 years ago by Jurat Shahidin60
2

A member of the Bioconductor team will review your package when you submit it. We are here to help and we will help you improve your package. 

Also see this primer.

ADD REPLYlink written 2.3 years ago by Dan Tenenbaum ♦♦ 8.2k

thank you !

ADD REPLYlink written 2.3 years ago by Jurat Shahidin60
1

I would encourage you to become comfortable with R, with Bioconductor, and with writing an R package before submitting your package to Bioconductor. Why not create a github repository of your package, get some of your colleagues to use it and provide some initial feedback. If it seems like the package is useful, and there are not too many problems, then work to improve your package and submit it to Bioconductor? If there are some problems, then you can ask for help on the R mailing list or Bioc-devel mailing list, pointing to the specific lines of code in that are causing you problems. Be sure to review the information on the Bioc developer web pages.

ADD REPLYlink written 2.3 years ago by Martin Morgan ♦♦ 21k

Dear Mr. Martin Morgan:

Thanks for your suggestion. I am comfortable with Bioconductor, and I have confident about to write R package for my projects. Of course, I will put my package on github repository soon. Thanks a lot

ADD REPLYlink written 2.3 years ago by Jurat Shahidin60
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