Last updated: 2023-11-20

Checks: 1 1

Knit directory: Amphibolis_Posidonia_Comparison/

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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 b5757ac Philipp Bayer 2023-11-20 Expand metagenome analysis
html b5757ac Philipp Bayer 2023-11-20 Expand metagenome analysis
html 71ed61d Philipp Bayer 2022-03-16 Build site.
Rmd ef70004 Philipp Bayer 2022-03-16 workflowr:::wflow_publish(files = "analysis/index.Rmd")
html a994174 Philipp Bayer 2022-03-10 Build site.
html 8886b0e Philipp Bayer 2022-03-10 Build site.
Rmd 02708fd Philipp Bayer 2022-03-10 New: fancy MSAs!!
html 1425b09 Philipp Bayer 2022-03-09 Build site.
Rmd 45b4b42 Philipp Bayer 2022-03-09 add better groups
html 2243fa6 Philipp Bayer 2022-02-23 muh files
html 1a19f93 Philipp Bayer 2022-02-23 Build site.
html 9b59467 Philipp Bayer 2022-02-23 Rewrite Orthofinder analysis
html b8c0df3 Philipp Bayer 2022-02-22 Build site.
Rmd 709a40d Philipp Bayer 2022-02-22 wflow_publish("analysis/index.Rmd")
html c0db4a5 Philipp Bayer 2021-10-07 Build site.
Rmd 08b28ea Philipp Bayer 2021-10-07 wflow_publish(files = c("analysis/*"))
html 76c8918 Philipp Bayer 2021-04-15 Build site.
Rmd 49dcbb8 Philipp Bayer 2021-04-15 wflow_publish(files = list.files("analysis/", pattern = "*Rmd",
Rmd 9e449bb Philipp Bayer 2021-04-14 Add missing files
html 9e449bb Philipp Bayer 2021-04-14 Add missing files
html 9e91425 Philipp Bayer 2021-04-14 Build site.
Rmd fa39572 Philipp Bayer 2021-04-14 wflow_publish(c("analysis/plot.Rmd", "analysis/_site.yml", "analysis/index.Rmd"),
Rmd a5be915 Philipp Bayer 2021-04-14 Start workflowr project.

This website collects comparisons of Amphibolis and Posidonia comparative analyses.

Repeat comparison plots - Comparing genome sizes and repeat/TE content

Phylogenies - plotting just phylogenies

Clustering results - analysing Orthofinder clustering results

R gene plotting - making phylogenies and showing R-gene number differences

Gene Loss comparison by reads - making heatmaps and barcharts to compare read alignments

GO enrichment - running topGO and REVIGO to make nice plots of GO-enrichment

GO and Ortho - merging plots from GO enrichment and Orthofinder analysis

MSA visualisation - visualising MSAs and phylogenies for gene clusters of interest (SOS3, EIN3)

3D structure - visualising the predicted 3D structure of SOS3/EIN3

Metagenomics - visualising metagenome differences across Posidonia/Amphibolis