RNAseq workshop July 10-11, 2017

These are tutorials for the RNAseq workshop at SIO in Oct, 2017.

They are under Creative Commons 0 license, free for all to use, reuse, and remix.

Instructors (alphabetical):

Lisa Johnson
Lisa Komoroske
John McCrow
N. Tessa Pierce
Luke Thompson

Admin + organization magicians:

Jess Blanton
Sara Rivera

Name	Name	Last commit message	Last commit date
Latest commit Lisa K. Johnson Add files via upload Dec 12, 2018 2807860 · Dec 12, 2018 History 187 Commits
_static	_static	Add files via upload	Oct 13, 2017
_templates	_templates	setup and initial tutorials	Jul 12, 2017
for-instructors	for-instructors	more setup	Jul 12, 2017
jetstream	jetstream	upd materials for sio	Oct 11, 2017
jupyter-notebook-demo	jupyter-notebook-demo	setup and initial tutorials	Jul 12, 2017
.DS_Store	.DS_Store	updates	Oct 13, 2017
.gitignore	.gitignore	setup, cont	Jul 12, 2017
DE.md	DE.md	Update DE.md	Oct 12, 2017
LC-github.md	LC-github.md	Merge branch 'master' of https://github.com/ljcohen/RNAseq-workshop-2017	Oct 13, 2017
Makefile	Makefile	setup and initial tutorials	Jul 12, 2017
README.md	README.md	Update README.md	Oct 12, 2017
analyzing_nanopore_data.md	analyzing_nanopore_data.md	setup and initial tutorials	Jul 12, 2017
assembly-trinity.md	assembly-trinity.md	upd materials for sio	Oct 11, 2017
clusters_tSNE_example.Rmd	clusters_tSNE_example.Rmd	Add files via upload	Oct 12, 2017
clusters_tSNE_example.html	clusters_tSNE_example.html	Add files via upload	Oct 12, 2017
code-of-conduct.rst	code-of-conduct.rst	Update code-of-conduct.rst	Oct 11, 2017
command-line-and-rstudio.md	command-line-and-rstudio.md	setup and initial tutorials	Jul 12, 2017
conf.py	conf.py	upd materials for sio	Oct 11, 2017
counting.md	counting.md	more setup	Jul 12, 2017
dammit_annotation.md	dammit_annotation.md	add dammit databases path command option	Jul 19, 2017
database_resources.md	database_resources.md	setup and initial tutorials	Jul 12, 2017
deseq2-asthma.md	deseq2-asthma.md	setup and initial tutorials	Jul 12, 2017
evaluation.md	evaluation.md	upd metazoa gene num	Oct 11, 2017
filezila-file-transfer.md	filezila-file-transfer.md	setup, cont	Jul 12, 2017
git_commands.md	git_commands.md	Update git_commands.md	Oct 13, 2017
github.md	github.md	setup and initial tutorials	Jul 12, 2017
index.md	index.md	Update index.md	Oct 13, 2017
introduction-to-automation.md	introduction-to-automation.md	setup and initial tutorials	Jul 12, 2017
kmers-and-sourmash.md	kmers-and-sourmash.md	adding links to lecture slides	Jul 21, 2017
nema_gene_name_id.csv	nema_gene_name_id.csv	Add files via upload	Dec 12, 2018
pathway_analysis.md	pathway_analysis.md	add title to path_analysis	Jul 15, 2017
plotPCAWithSampleNames.R	plotPCAWithSampleNames.R	Add files via upload	Jul 19, 2017
quality-trimming.md	quality-trimming.md	Update quality-trimming.md	Jul 6, 2018
quantification.md	quantification.md	Update quantification.md	Jul 5, 2018
requirements.txt	requirements.txt	setup and initial tutorials	Jul 12, 2017
rmarkdown_rnaseq.md	rmarkdown_rnaseq.md	setup and initial tutorials	Jul 12, 2017
toc.rst	toc.rst	fix dammit link	Oct 12, 2017
variant-calling.md	variant-calling.md	setup, cont	Jul 12, 2017

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