Improve Research Reproducibility A Bio-protocol resource
bpdetail_icon_lock
Preprint

Slingshot

BM Bryan Marsh
RB Robert Blelloch

Last updated date: Mar 24, 2022 Views: 642 Forks: 0

original An abbreviated version of this protocol was published in eLife in Nov, 2020
Single nuclei RNA-seq of mouse placental labyrinth development
download pdf Download PDF
ask Ask a question
cite How to cite
nfavorite Favorite

Slingshot was used according to instructions from the developers found here: https://bioconductor.org/packages/devel/bioc/vignettes/slingshot/inst/doc/vignette.html 

https://github.com/kstreet13/slingshot

 

Attached is the R code used perform slingshot on the integrated trophoblast dataset to perform trajectory inference from LaTP to the SynTI, SynTII, and S-TGC. The input files as R objects can be downloaded here: https://figshare.com/projects/Single_nuclei_RNA-seq_of_mouse_placental_labyrinth_development/92354

Related files

txt mouse.troph.combined.slingshot.txt download
Copyright: Content may be subjected to copyright.
How to cite：
Readers should cite both the Bio-protocol preprint and the original research article where this protocol was used:
  1. Marsh, B and Blelloch, R(2022). Slingshot. Bio-protocol Preprint. bio-protocol.org/prep1598.
  2. Marsh, B. and Blelloch, R.(2020). Single nuclei RNA-seq of mouse placental labyrinth development. eLife. DOI: 10.7554/eLife.60266

Do you have any questions about this protocol?

Post your question to gather feedback from the community. We will also invite the authors of this article to respond.

post Post a Question
0 Q&A
This protocol preprint was submitted via the Bio-protocol Exchange "Submit a Preprint" track.