Would you like to generate a manual in PDF format?

[wzhy2000]

This is Zhong Wang at Danko lab. Your package has many users in our lab. But if you generate a manual in PDF, it will be helpful for the beginner.

Thanks,

Zhong Wang

[andrelmartins]

I am open to doing some sort of introductory manual. Do you have a list of topics you would like to see covered or any material prepared? Are you willing to collaborate on editing?

Best,
André

[wzhy2000]

Hello Andre, I really hope you to publish your bigWig package. Danko lab often has new beginners to use your package. I only made a PDF manual for them using the R command "R CMD Rd2pdf bigWig". Today I only want to push this PDF manual to your repository, so I created an issue in your Github. If you want to make a vignette for R users, I am very glad to collaborate with you. I knew some functions we used very often, maybe you need this information. Please let me know your thought. Best regards, Zhong Wang

…

On Wed, Sep 19, 2018 at 5:42 PM andrelmartins ***@***.***> wrote: I am open to doing some sort of introductory manual. Do you have a list of topics you would like to see covered or any material prepared? Are you willing to collaborate on editing? Best, André — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#1 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AIDT6rrO-3qRZqSx1OkNG5eQTLAU29lCks5ucrpFgaJpZM4Ww2Gb> .

[andrelmartins]

When you say "publish", do you mean a journal article or do you mean something like CRAN or bioconductor ? As for the PDF, I'm willing to add that as another release file.

Although what I had in mind was something closer to an actual manual. To that end, any information you have on what functions are most used in the lab and what are the common issues for new users, would be very valuable.

Best,
André

[dankoc]

I think it would be great to have a vignette type document. I don't think it would need to be all that long to be useful. Functions that I would suggest including: * Counting reads from a BED file (stranded/ unstranded). * Meta plots. * Covering both stranded (PRO-seq) and unstranded (ChIP-seq) data. * Counting reads in non-overlapping windows. Best, Charles

On Thu, Sep 20, 2018 at 2:29 PM andrelmartins ***@***.***> wrote: When you say "publish", do you mean a journal article or do you mean something like CRAN or bioconductor ? As for the PDF, I'm willing to add that as another release file. Although what I had in mind was something closer to an actual manual. To that end, any information you have on what functions are most used in the lab and what are the common issues for new users, would be very valuable. Best, André — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#1 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/ADFD_ZpfUSuCFht2eXq49Q-mHWEyrQV5ks5uc96JgaJpZM4Ww2Gb> .

-- Assistant Professor Baker Institute for Animal Health College of Veterinary Medicine Cornell University 235 Hungerford Hill Road Ithaca, NY 14853 Phone: 315-395-4693 Website: http://www.dankolab.org E-mail: dankoc@gmail.com

[guertinlab]

I am working with @lutus, who has the beginnings of a vignette (https://github.com/lutus/bigWig/raw/master/doc/bigWig.pdf). Should we try to polish the vignette so that you can submit to bioconductor?

[mjg54]

an HTML vignette is now built with R CMD build bigWig. I rendered a PDF as well, but I don't know where to include it in the package. Any suggestions?

[andrelmartins]

We could add it as an extra asset with new releases.