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bump to version 0.11.0
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david-barnett committed Jul 29, 2023
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2 changes: 1 addition & 1 deletion DESCRIPTION
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Package: microViz
Title: Microbiome Data Analysis and Visualization
Version: 0.10.11.9000
Version: 0.11.0
Authors@R:
person(given = "David",
family = "Barnett",
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2 changes: 1 addition & 1 deletion NEWS.md
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# microViz (development version)
# microViz 0.11.0

- `taxatree_models` now accepts transformation arguments to allow transformation after aggregation at each rank

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18 changes: 9 additions & 9 deletions README.md
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Expand Up @@ -17,7 +17,7 @@ date)](https://img.shields.io/docker/v/barnettdavid/microviz-rocker-verse?color=
status](https://david-barnett.r-universe.dev/badges/microViz)](https://david-barnett.r-universe.dev/ui#package:microViz)
[![JOSS
article](https://joss.theoj.org/papers/4547b492f224a26d96938ada81fee3fa/status.svg)](https://joss.theoj.org/papers/4547b492f224a26d96938ada81fee3fa)
[![Citations](https://img.shields.io/badge/Citations-~50-blueviolet)](https://scholar.google.com/scholar?oi=bibs&hl=en&cites=5439940108464463894)
[![Citations](https://img.shields.io/badge/Citations-~53-blueviolet)](https://scholar.google.com/scholar?oi=bibs&hl=en&cites=5439940108464463894)
[![Zenodo
DOI](https://zenodo.org/badge/307119750.svg)](https://zenodo.org/badge/latestdoi/307119750)
<!-- badges: end -->
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``` r
library(microViz)
#> microViz version 0.10.10 - Copyright (C) 2023 David Barnett
#> microViz version 0.11.0 - Copyright (C) 2023 David Barnett
#> ! Website: https://david-barnett.github.io/microViz
#> ✔ Useful? For citation details, run: `citation("microViz")`
#> ✖ Silence? `suppressPackageStartupMessages(library(microViz))`
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n_processes = 1, n_perms = 99, # you should use at least 999!
variables = "bmi_group"
)
#> 2023-07-20 17:10:01.831556 - Starting PERMANOVA with 99 perms with 1 processes
#> 2023-07-20 17:10:01.889154 - Finished PERMANOVA
#> 2023-07-28 22:52:57.924566 - Starting PERMANOVA with 99 perms with 1 processes
#> 2023-07-28 22:52:57.981476 - Finished PERMANOVA

# view the permanova results
perm_get(aitchison_perm) %>% as.data.frame()
Expand All @@ -357,8 +357,8 @@ your permanova directly using the `ord_plot` function with constraints
perm2 <- aitchison_dists %>%
dist_permanova(variables = c("weight", "african", "sex"), seed = 321)
#> Dropping samples with missings: 2
#> 2023-07-20 17:10:01.900323 - Starting PERMANOVA with 999 perms with 1 processes
#> 2023-07-20 17:10:03.569987 - Finished PERMANOVA
#> 2023-07-28 22:52:57.992459 - Starting PERMANOVA with 999 perms with 1 processes
#> 2023-07-28 22:52:59.653581 - Finished PERMANOVA
```

We’ll visualise the effect of nationality and bodyweight on sample
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sessionInfo()
#> R version 4.3.0 (2023-04-21)
#> Platform: aarch64-apple-darwin20 (64-bit)
#> Running under: macOS Ventura 13.4.1
#> Running under: macOS Ventura 13.5
#>
#> Matrix products: default
#> BLAS: /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/lib/libRblas.0.dylib
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#> [1] stats graphics grDevices utils datasets methods base
#>
#> other attached packages:
#> [1] ggplot2_3.4.2 dplyr_1.1.2 phyloseq_1.44.0 microViz_0.10.10
#> [5] testthat_3.1.10 devtools_2.4.5 usethis_2.2.2
#> [1] ggplot2_3.4.2 dplyr_1.1.2 phyloseq_1.44.0 microViz_0.11.0
#> [5] testthat_3.1.10 devtools_2.4.5 usethis_2.2.2
#>
#> loaded via a namespace (and not attached):
#> [1] RColorBrewer_1.1-3 shape_1.4.6 rstudioapi_0.15.0
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