# [biocswirl] Complete "neuroinformatics" snRNA-seq Course

[lisancao]

[biocswirl] Complete "neuroinformatics" snRNA-seq Course

About: to be added onto existing scRNA course.

• Note will be a course going over comparisons

Tasks

• [x] Complete course outline
• [x] Draft pipeline(s) that can demonstrate scRNA and snRNAseq differences well

Resources

This is a good workflow to use: https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0209648

https://github.com/AllenInstitute/L5_VEN https://github.com/Sun-lab/scRNAseq_pipelines

Tag can be

biocswirl(related to course material)
biocterm (interface changes)
dev      (developers only)
file     (changes to file and folder structuring) 
rpkg     (r package/usethis and CRAN documentation changes)
feat     (new feature)
fix      (bug fix)
refactor (refactoring code)
style    (formatting, missing semi colons, etc; no code change)
doc      (changes to documentation)
test     (adding or refactoring tests; no production code change)
version  (version bump/new release; no production code change)
dbg      (Changes in debugging code/frameworks; no production code change)
license  (Edits regarding licensing; no production code change)
hack     (Temporary fix to make things move forward; please avoid it)
WIP      (Work In Progress; for intermediate commits to keep patches reasonably sized)

[e-hutchins]

So far, this course, courses/neuroinformatics, contains:

0) complete lesson highlighting differences between snRNA-Seq and scRNA-seq data 1) a lesson outline for running seurat on both sets of data

Ideas for further development:

• incorporating PsychEncode deconvolution data, Bulk RNA-Seq Decomposition and Deconvolution with Single-cell Data

[e-hutchins]

P.S. This is the tutorial for the seurat lesson, maybe it can be added to the main scRNA-seq course as well.

[https://scrnaseq-course.cog.sanger.ac.uk/website/seurat-chapter.html](seurat tutorial)