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Emma Rachel Jablonski
Bioconductor project
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· 626b9fb7
Emma Rachel Jablonski
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Jul 29, 2020
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Merge branch 'master' of
https://renkulab.io/gitlab/emma.jablonski/bioconductor-project
· 6d8ed1b3
Emma Rachel Jablonski
authored
Jul 29, 2020
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# Bioconductor project
## Introduction
Bioconductor project example.
This is a Renku project - basically a git repository with some
bells and whistles. You'll find we have already created some
useful things like
`data`
and
`notebooks`
directories and
a
`Dockerfile`
.
## Working with the project
The simplest way to start your project is right from the Renku
platform - just click on the
`Environments`
tab and start a new session.
This will start an interactive environment right in your browser.
To work with the project anywhere outside the Renku platform,
click the
`Settings`
tab where you will find the
git repo URLs - use
`git`
to clone the project on whichever machine you want.
### Changing interactive environment dependencies
Initially we install a very minimal set of packages to keep the images small.
However, you can add python and conda packages in
`requirements.txt`
and
`environment.yml`
, and R packages to
`install.R`
(listed as, for example,
`install.packages("ggplot2")`
), to your heart's content. If you need more fine-grained
control over your environment, please see
[
the documentation
](
https://renku.readthedocs.io/en/latest/user/adva
nced_interfaces.html#dockerfile-modifications).
## Project configuration
Project options can be found in
`.renku/renku.ini`
. In this
project there is currently only one option, which specifies
the default type of environment to open, in this case
`/rstudio`
.
## Moving forward
Once you feel at home with your project, we recommend that you replace
this README file with your own project documentation! Happy data wrangling!
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