Published July 4, 2021
| Submitted
Discussion Paper
Open
Single cell tools for WormBase
Abstract
We present two web apps for interactively performing common tasks with single cell RNA sequencing data: scdefg for interactive differential expression and wormcells-viz for visualization of gene expression. We made these tools available with public C. elegans datasets curated by WormBase at single-cell.wormbase.org. They can also be readily deployed for use with any other datasets using the source code available at github.com/WormBase/scdefg and at github.com/WormBase/wormcells-viz.
Additional Information
The copyright holder has placed this preprint in the Public Domain. It is no longer restricted by copyright. Anyone can legally share, reuse, remix, or adapt this material for any purpose without crediting the original authors. This version posted July 4, 2021. The authors would like to thank Paulo Nuin for reviewing the code, Tom Morrell for assistance with CaltechData, and Valentine Svensson for suggestions on the manuscript. This work was supported by grants NIH U24HG010859 and NIH U24HG002223.Attached Files
Submitted - 2021.07.04.451030v1.full.pdf
Files
2021.07.04.451030v1.full.pdf
Files
(2.3 MB)
| Name | Size | Download all |
|---|---|---|
|
md5:91300baf664844a32970303157a488d7
|
2.3 MB | Preview Download |
Additional details
- Eprint ID
- 109773
- Resolver ID
- CaltechAUTHORS:20210712-143510822
- NIH
- U24HG010859
- NIH
- U24HG002223
- Created
-
2021-07-12Created from EPrint's datestamp field
- Updated
-
2021-11-16Created from EPrint's last_modified field
- Caltech groups
- WormBase, Division of Biology and Biological Engineering (BBE)