_footer.Rmd

* * *



# R session information {.tabset}

```{r session_info}
markdownHeader("YAML params", level = 2)
print(params)

markdownHeader("`_setup.R`", level = 2)
readr::read_lines("_setup.R") %>% writeLines()

markdownHeader("`sessioninfo::session_info()`", level = 2)
sessioninfo::session_info()

markdownHeader("`utils::sessionInfo()`", level = 2)
utils::sessionInfo()
```



[bcbio]: https://bcbio-nextgen.readthedocs.io
[bcbioSingleCell]: http://bioinformatics.sph.harvard.edu/bcbioSingleCell
[bcl2fastq]: https://support.illumina.com/downloads/bcl2fastq-conversion-software-v217.html
[biomaRt]: https://bioconductor.org/packages/release/bioc/html/biomaRt.html
[conda]: https://conda.io
[DESeq2]: https://doi.org/doi:10.18129/B9.bioc.DESeq2
[edgeR]: https://doi.org/doi:10.18129/B9.bioc.edgeR
[Ensembl]: http://useast.ensembl.org
[inDrop]: http://1cell-bio.com
[Matrix]: https://cran.r-project.org/web/packages/Matrix/index.html
[Orchestra]: https://wiki.med.harvard.edu/Orchestra
[Python]: https://python.org
[R]: https://www.r-project.org
[rapmap]: https://github.com/COMBINE-lab/RapMap
[scater]: https://doi.org/doi:10.18129/B9.bioc.scater
[scran]: https://doi.org/doi:10.18129/B9.bioc.scran
[scRNA-seq]: http://bcbio-nextgen.readthedocs.io/en/latest/contents/configuration.html#single-cell-rna-sequencing
[Seurat]: http://satijalab.org/seurat
[UMAP]: https://github.com/lmcinnes/umap
[umis]: https://github.com/vals/umis
[zinbwave]: https://doi.org/doi:10.18129/B9.bioc.zinbwave
[zingeR]: https://github.com/statOmics/zingeR