From f463c823411835bb73b9f4a207ca3f46449b4a7d Mon Sep 17 00:00:00 2001 From: GitHub Actions Date: Tue, 14 Nov 2023 01:08:11 +0000 Subject: [PATCH] markdown source builds Auto-generated via {sandpaper} Source : b28586e6f4ac04c313f2348e105ee40de975048b Branch : main Author : Charlotte Soneson Time : 2023-11-07 06:42:38 +0000 Message : Merge pull request #97 from carpentries-incubator/update/packages Update 48 packages --- config.yaml | 86 ++ renv.lock | 2923 +++++++++++++++++++++++++++++++++++++++++++++++++++ 2 files changed, 3009 insertions(+) create mode 100644 config.yaml create mode 100644 renv.lock diff --git a/config.yaml b/config.yaml new file mode 100644 index 00000000..94b86364 --- /dev/null +++ b/config.yaml @@ -0,0 +1,86 @@ +#------------------------------------------------------------ +# Values for this lesson. +#------------------------------------------------------------ + +# Which carpentry is this (swc, dc, lc, or cp)? +# swc: Software Carpentry +# dc: Data Carpentry +# lc: Library Carpentry +# cp: Carpentries (to use for instructor training for instance) +# incubator: The Carpentries Incubator +carpentry: 'incubator' +varnish: mblue9/varnish + +# Overall title for pages. +title: 'RNA-seq analysis with Bioconductor' + +# Date the lesson was created (YYYY-MM-DD, this is empty by default) +created: '2020-09-15' + +# Comma-separated list of keywords for the lesson +keywords: 'software, data, lesson, The Carpentries' + +# Life cycle stage of the lesson +# possible values: pre-alpha, alpha, beta, stable +life_cycle: 'pre-alpha' + +# License of the lesson +license: 'CC-BY 4.0' + +# Link to the source repository for this lesson +source: 'https://github.com/carpentries-incubator/bioc-rnaseq' + +# Default branch of your lesson +branch: 'main' + +# Who to contact if there are any issues +contact: 'charlotte.soneson@fmi.ch' + +# Navigation ------------------------------------------------ +# +# Use the following menu items to specify the order of +# individual pages in each dropdown section. Leave blank to +# include all pages in the folder. +# +# Example ------------- +# +# episodes: +# - introduction.md +# - first-steps.md +# +# learners: +# - setup.md +# +# instructors: +# - instructor-notes.md +# +# profiles: +# - one-learner.md +# - another-learner.md + +# Order of episodes in your lesson +episodes: +- 01-intro-to-rnaseq.Rmd +- 02-setup.Rmd +- 03-import-annotate.Rmd +- 04-exploratory-qc.Rmd +- 05-differential-expression.Rmd +- 06-extra-design.Rmd +- 07-gene-set-analysis.Rmd +- 08-next-steps.Rmd + +# Information for Learners +learners: + +# Information for Instructors +instructors: + +# Learner Profiles +profiles: + +# Customisation --------------------------------------------- +# +# This space below is where custom yaml items (e.g. pinning +# sandpaper and varnish versions) should live + +url: https://carpentries-incubator.github.io/bioc-rnaseq diff --git a/renv.lock b/renv.lock new file mode 100644 index 00000000..614d975c --- /dev/null +++ b/renv.lock @@ -0,0 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