The R code underlying the analysis of a scientific paper is hosted here in the interests of reproducibility. The manuscript is undergoing peer review and this code might be refactored or changed.
Ilsley, G. R., Suyama, R., Noda, T., Satoh, N. & Luscombe, N. M. Identifying developmentally important genes with single-cell RNA-seq from an embryo. bioRxiv 197699 (2017). https://doi.org/10.1101/197699
The code was tested on R 3.4.1 using Bioconductor 3.6 (development version).
The project has the following directory structure:
| Directory | Content |
|---|---|
| data-raw | Data in csv format for importing into R. |
| data | Count data in rda format (of SingleCellExperiment class). |
| exports | Data exported from the DESeq analysis script. |
| images | Images generated for Figure 1. |
| scripts | R scripts used for Figure 1, pattern scoring and DESeq comparison. |