[Bioc-devel] List of Deprecated Packages for Bioc3.8

The Bioconductor Team is continuing to identify packages that will be deprecated in the next release to allow for the Bioconductor community to respond accordingly. The list will be updated monthly. The current list of deprecated packages is as follows: Maintainer requested deprecation:

Re: [Bioc-devel] Question about package development

As Lori has noted Bioconductor users have access to many chain files through AnnotationHub -- please let us know if these are not sufficient for your needs. > library(AnnotationHub) > ah = AnnotationHub() > query(ah, "chain") AnnotationHub with 1513 records # snapshotDate(): 2018-08-01 #

Re: [Bioc-devel] EXTERNAL: Re: Is biocLite() working for you right now? Could be a problem on our side. Issue with DelayedArray install with a PC on R 3.5.0

The large number of people cc'd on this thread causes the mailman software to block posts. I'm removing individuals, please respond to this message. On 08/02/2018 01:57 PM, Hervé Pagès wrote: Hi Leonardo, Hope you were able to solve your connection problems. Just to let you that I fixed the

Re: [Bioc-devel] Is biocLite() working for you right now? Could be a problem on our side. Issue with DelayedArray install with a PC on R 3.5.0

Hi Leonardo, Hope you were able to solve your connection problems. Just to let you that I fixed the DelayedArray timeout on Windows and the zip files are now available for this platform: https://bioconductor.org/packages/DelayedArray Sorry for the inconvenience. Cheers, H. On 08/01/2018

Re: [Bioc-devel] Question about package development

You could see if there are any appropriate chain files provided in AnnotationHub (https://bioconductor.org/packages/release/bioc/html/AnnotationHub.html) library(AnnotationHub) ah = AnnotationHub( ) query(ah, "chain file") or investigate other packages that do similar functions or address

Re: [Bioc-devel] EXTERNAL: troubles with fetching Bioconductor github

No, I'm not aware of any such issues. Maybe someone else in the community can chip in with some information about this. Best, Nitesh Get Outlook for Android From: Piotr Sent: Friday, August 3, 2018 5:22:23 AM To: Turaga, Nitesh Cc:

Re: [Bioc-devel] EXTERNAL: troubles with fetching Bioconductor github

Dear Nitesh, now works ok, although I did not change anything. maybe there is a time when I should not connect with Bioconductor git? Piotr On Thu, Aug 2, 2018 at 11:35 PM Turaga, Nitesh < nitesh.tur...@roswellpark.org> wrote: > Please copy the result of this, > > git remote -v > > and

[Bioc-devel] Question about package development

To whom it may concern, I am Ghiwa a research assistant at Dr.Pierre Khoeuiry bioinformatic's lab at the American University of Beirut. We are currently building our package and we have a question, we hope you can help us with. While writing the documentation for the function(.Rd file) the