Hi Chris,
We have a key already for you. It is possible you are using the wrong key to
access git.bioconductor.org.
ssh-rsa
B3NzaC1yc2EDAQABAAABAQCv4h33vFVuXjQqddBgjU2398YglnXpOPL1xgU1t63JQ+bJWOQx2wl
That is the prefix of the key we have on file for you. One way is to submit a
new ke
Thank you for bringing this to our attention.
The resources were created with a previous version of SummarizedExperiment that
were not compatible with the current version.
New resources have been added and are visible in both release 3.6 and devel
3.7. Please note the new EH_id's:
> librar
Great! Thanks for resolving this so fast. Ludwig
From: Shepherd, Lori
Sent: Friday, December 15, 2017 1:48 PM
To: Ludwig Geistlinger; bioc-devel@r-project.org
Subject: Re: GSE62944, empty EH164 and EH165
Thank you for bringing this to our attention.
The resou
Hi Gabriel,
You seem to have not submitted your SVN ID. Please submit your key along with
that information.
Best
Nitesh
> On Dec 15, 2017, at 12:50 PM, Hoffman, Gabriel
> wrote:
>
> Hi,
>
> I am having an issue pushing changes from my git repo to Bioconductor. I can
> push changes to Gi
Hi Lori,
I would be willing to take over maintenance of
ToPASeq
in case maintainers remain unresponsive.
Best,
Ludwig
--
Dr. Ludwig Geistlinger
CUNY School of Public Health
From: Bioc-devel on behalf of Shepherd, Lori
Sent: Friday, December 15, 201
Hi,
I am having an issue pushing changes from my git repo to Bioconductor. I can
push changes to Github just fine.
Here my push command fails.
> git push upstream
FATAL: W any packages/variancePartition gabrielhoffman DENIED by fallthru
(or you mis-spelled the reponame)
fatal: Could not r
n> git push upstream
FATAL: W any packages/variancePartition gabrielhoffman DENIED by fallthru
(or you mis-spelled the reponame)
fatal: Could not read from remote repository.
Please make sure you have the correct access rights
and the repository exists.
> ssh -T g...@git.bioconductor.org
Thanks for this!
Lori Shepherd
Bioconductor Core Team
Roswell Park Cancer Institute
Department of Biostatistics & Bioinformatics
Elm & Carlton Streets
Buffalo, New York 14263
From: Bioc-devel on behalf of Andrzej Ole�
Sent: Friday, December 15, 2017 10:27
This already looks much improved, thanks Andrzej and Aaron. I think
workflows are where it's at, and this page is probably
underappreciated by Bioconductor users and the outside community.
My wishlist for the workflows page, which may exceed what is available
for the current effort:
1) It should
Thanks Andrzej. And yes, I just put in a PR; I hope itemized sublists
for a particular workflow (i.e., mine) aren't too ambitious.
I'm thinking about whether "Epigenetics" is the right section heading.
For greatest generality, you could call it "Genome regulation", which
bundles all genomic bin
Hi Aaron,
thank you for taking the lead. I've merged your suggested categories with
my preliminary arrangement (which just went online). I've also included an
index at the beginning of the page.
Any refinements are of course welcome, e.g. via PR to
https://github.com/Bioconductor/bioconductor.org
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:
Softwa
Hi Laurent,
thanks, we might consider this in the future. To get us going, for the
moment we will probably just rearrange the website manually.
On the technical note: even though workflows are now fully fledged
packages, two documents linked from https://bioconductor.org/help/workflows
are just s
Hi,
Motivated by discussions with Aaron I've already started to group the
workflows on the page (but this change didn't propagate to the website
yet). Some common topics I was able to identify so far include:
- Beginner's Worklows authored originally by the core team giving a quite
broad overview
My proposed categories reflect my vested interests, but here goes:
- Gene expression:
- rnaseqGene
- RNAseq123
- ExpressionNormalizationWorkflow
- RnaSeqGeneEdgeRQL
- Epigenomics: (not quite sure what to call this)
- chipseqDB
- methylationArrayAnalysis
- generegulatio
On 15 December 2017 12:33, Shepherd, Lori wrote:
> Hello all,
>
>
> There has been a request to reorganize the workflow page as workflows
> have grown past basic and advanced.
>
> http://bioconductor.org/help/workflows/
>
> We wanted to check with the community what your thoughts were for
> categ
Hello all,
There has been a request to reorganize the workflow page as workflows have
grown past basic and advanced.
http://bioconductor.org/help/workflows/
We wanted to check with the community what your thoughts were for categories.
Thank you for your suggestions.
Lori Shepherd
Biocon
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