Last updated: 2021-07-01
Checks: 2 0
Knit directory: wildlife-bacteria/
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These are the previous versions of the repository in which changes were made to the R Markdown (analysis/index.Rmd) and HTML (docs/index.html) files. If you’ve configured a remote Git repository (see ?wflow_git_remote), click on the hyperlinks in the table below to view the files as they were in that past version.
| File | Version | Author | Date | Message |
|---|---|---|---|---|
| Rmd | 76cd179 | siobhon-egan | 2021-07-01 | workflowr::wflow_publish(files = c("_workflowr.yml“,”analysis/_site.yml", |
| html | 76cd179 | siobhon-egan | 2021-07-01 | workflowr::wflow_publish(files = c("_workflowr.yml“,”analysis/_site.yml", |
| Rmd | 5f4c86d | siobhon-egan | 2021-05-23 | restructure pages |
| html | 5f4c86d | siobhon-egan | 2021-05-23 | restructure pages |
| Rmd | 0d602a3 | siobhon-egan | 2021-05-23 | updates to pages |
| html | 0d602a3 | siobhon-egan | 2021-05-23 | updates to pages |
| html | a69dea3 | siobhon-egan | 2021-04-24 | Build site. |
| Rmd | 6ebcc5d | siobhon-egan | 2021-04-24 | updates |
| html | 6ebcc5d | siobhon-egan | 2021-04-24 | updates |
| html | a0173d4 | siobhon-egan | 2021-02-26 | Build site. |
| Rmd | d502188 | siobhon-egan | 2021-02-26 | microbiome visualization |
| html | 7aafdac | siobhon-egan | 2021-02-26 | Build site. |
| Rmd | 0e683ca | siobhon-egan | 2021-02-26 | Publish the initial files for myproject |
| Rmd | 681fc13 | siobhon-egan | 2021-01-29 | Start workflowr project. |
In the spirit of reproducibility this project website is created that outlines analysis done for the following publication:
The bacterial biome of ticks and their wildlife hosts at the sylvatic urban interface.
Authors: Siobhon L. Egan, Casey L. Taylor, Peter B. Banks, Amy S. Northover, Liisa A. Ahlstrom, Una M. Ryan, Peter J. Irwin, Charlotte L. Oskam.
This publication is also a chpater of my PhD Thesis 2021
Raw Illumina MiSeq data is available at European nucleotide archive the project accession number PRJEB46006 (ERP130188), which includes the following sample accession numbers:
Nucleotide sequence data available on Genbank
Anaplasmataceae (long 16S rRNA)
MW633160--MW633167
Borrelia 16S rRNA
MW633074
Bartonella ITS
MW633076--MW633082
ASVs for taxa of interest
XXXXXX-XXXXXX
Data used but not directly produced for this manuscript.
Nucleotide data for identification of ticks
MW665133–MW665150
To build/view webiste locally
wflow_build() and wflow_view()
Status of workflow
wflow_status()
Publish website pages
wflow_publish(c("analysis/index.Rmd", "analysis/first-analysis.Rmd"), "Add my first analysis")
Push website to github
wflow_git_push()