Last updated: 2021-07-03
Checks: 2 0
Knit directory: wildlife-bacteria/
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| File | Version | Author | Date | Message |
|---|---|---|---|---|
| Rmd | af6ad5b | siobhon-egan | 2021-07-03 | general update |
| Rmd | 1734474 | siobhon-egan | 2021-07-02 | fix conflict |
| html | 1734474 | siobhon-egan | 2021-07-02 | fix conflict |
| Rmd | e926c9d | siobhon-egan | 2021-07-02 | fix conflicts |
| html | e926c9d | siobhon-egan | 2021-07-02 | fix conflicts |
| Rmd | 33466dd | siobhon-egan | 2021-07-01 | update inc accession no |
| html | 33466dd | siobhon-egan | 2021-07-01 | update inc accession no |
| 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 chapater of my PhD Thesis 2021.
Project website available here http://siobhonlegan.com/wildlife-bacteria/ and source code is available at https://github.com/siobhon-egan/wildlife-bacteria/
Raw Illumina MiSeq data is available at European nucleotide archive the project accession number PRJEB46006 (ERP130188), which includes the following sample accession numbers:
In addition the following nucleotide sequence data has been deposited to GenBank
Data produced after bioinformatic analysis of raw Illumina MiSeq data such as taxonomy table, ASV count data and metadata is available within the Rdata/ directory in .RData format.
Illumina MiSeq data generated from the metabarcoding of ticks targeting the 12S rRNA locus has been deposited in the European nucleotide archive under the project accession number PRJEB46056 (ERP130244), which includes the following sample accession numbers: ERS6635126–ERS6635348 (BioSample # SAMEA8952359–SAMEA8952582)
Nucleotide data for subset of zOTUs generated are available in for the molecular identification of ticks has been uploaded to GenBank under accession numbers MW665133–MW665150.