[Bioc-devel] ExperimentHub with AWS

Kern, Lori Lor|@Shepherd @end|ng |rom Ro@we||P@rk@org
Fri Oct 2 14:22:59 CEST 2020


Thank you for your interest in the hubs.  We would agree that hosting on AWS would be better than a google drive.

Firstly, there is an off-list   hubs using bioconductor.org email to direct future hub inquires and questions too.

I will send the credentials in a private email follow this one to allow you to upload your files to a temporary location on S3.  Once the data is uploaded, we will move them to a permanent location.

In order to add the data to the database,  We need at least a basic shell of a package that includes a valid, complete DESCRIPTION file and inst/extdata/metadata.csv  file.  You will eventually need to submit this package to the submission tracker like you did for preciseTAD.

Hopefully this gets you started.  Please address further issues to hubs using bioconductor.org


Lori Shepherd

Bioconductor Core Team

Roswell Park Comprehensive Cancer Center

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of Spiro Stilianoudakis <stilianoudasc using mymail.vcu.edu>
Sent: Thursday, October 1, 2020 3:46 PM
To: bioc-devel using r-project.org <bioc-devel using r-project.org>
Subject: [Bioc-devel] ExperimentHub with AWS

Hi all,

I am maintaining a newly added package on Bioconductor (preciseTAD). I am
interested in having an accompanying experiment data package where I will
be storing approximately ~5gb worth of rds (or Rda) objects. They are
currently being stored on a google drive but I would prefer them to be
accessed via AWS. I have been reading the tutorial for how to accomplish
this via experimenthub using


Under section 2.1 of the above tutorial it mentions that this requires
assistance from a Bioconductor team member. I am new to this, so I just
want to make sure I am going about this correctly. I would greatly
appreciate any input/advice from someone more experienced in the matter.
Also, is it correct that I need to have the experiment package created
before the data is added to the hub?

Thank you ahead of time for any help you can provide!


Spiro Stilianoudakis
PhD Candidate | Department of Biostatistics
Virginia Commonwealth University

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