From 21a4b4fcf82ce797ddf62fb6142e3699a42dc730 Mon Sep 17 00:00:00 2001 From: xec-cm <70643921+xec-cm@users.noreply.github.com> Date: Wed, 17 Apr 2024 17:33:02 +0000 Subject: [PATCH] =?UTF-8?q?Deploying=20to=20gh-pages=20from=20@=20Microbia?= =?UTF-8?q?lGenomics-IrsicaixaOrg/dar@cb0aec72bfadd1975dff1d2f7c173c7eda33?= =?UTF-8?q?d7cd=20=F0=9F=9A=80?= MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit --- 404.html | 8 +- CODE_OF_CONDUCT.html | 6 +- CONTRIBUTING.html | 6 +- LICENSE-text.html | 6 +- LICENSE.html | 6 +- articles/article.html | 43 ++++----- articles/dar.html | 39 ++++---- articles/data_import.html | 106 ++++++---------------- articles/filtering_subsetting.html | 37 ++++---- articles/import_export_recipes.html | 41 ++++----- articles/index.html | 8 +- authors.html | 10 +- deps/bootstrap-5.3.1/bootstrap.min.css | 2 +- index.html | 8 +- news/index.html | 13 ++- pkgdown.yml | 6 +- reference/PrepRecipe-class.html | 6 +- reference/Recipe-class.html | 6 +- reference/abundance_plt.html | 74 +++++++-------- reference/add_step.html | 6 +- reference/add_tax.html | 74 +++++++-------- reference/add_var.html | 74 +++++++-------- reference/bake.html | 74 +++++++-------- reference/contains_rarefaction.html | 6 +- reference/cool.html | 74 +++++++-------- reference/corr_heatmap.html | 78 ++++++++-------- reference/dar-package.html | 6 +- reference/exclusion_plt.html | 74 +++++++-------- reference/export_steps.html | 6 +- reference/find_intersections.html | 6 +- reference/get_comparisons.html | 6 +- reference/get_phy.html | 6 +- reference/get_tax.html | 6 +- reference/get_var.html | 6 +- reference/grapes-greater-than-grapes.html | 6 +- reference/import_steps.html | 6 +- reference/index.html | 6 +- reference/intersection_df.html | 74 +++++++-------- reference/intersection_plt.html | 76 ++++++++-------- reference/metaHIV_phy.html | 6 +- reference/mutual_plt.html | 74 +++++++-------- reference/otu_table.html | 6 +- reference/overlap_df.html | 74 +++++++-------- reference/pastry_df.html | 6 +- reference/phy_qc.html | 6 +- reference/prep.html | 74 +++++++-------- reference/prep_recipe.html | 6 +- reference/rand_id.html | 6 +- reference/read_data.html | 6 +- reference/recipe.html | 6 +- reference/recipes_pkg_check.html | 6 +- reference/required_deps.html | 6 +- reference/sample_data.html | 6 +- reference/step.html | 6 +- reference/step_aldex.html | 6 +- reference/step_ancom.html | 6 +- reference/step_corncob.html | 6 +- reference/step_deseq.html | 6 +- reference/step_filter_by_abundance.html | 6 +- reference/step_filter_by_prevalence.html | 6 +- reference/step_filter_by_rarity.html | 6 +- reference/step_filter_by_variance.html | 6 +- reference/step_filter_taxa.html | 6 +- reference/step_lefse.html | 6 +- reference/step_maaslin.html | 6 +- reference/step_metagenomeseq.html | 6 +- reference/step_rarefaction.html | 6 +- reference/step_subset_taxa.html | 6 +- reference/step_to_expr.html | 6 +- reference/step_wilcox.html | 6 +- reference/steps_ids.html | 6 +- reference/tax_table.html | 6 +- reference/test_prep_rec.html | 6 +- reference/test_rec.html | 6 +- reference/tidyeval.html | 12 +-- reference/to_tibble.html | 6 +- reference/use_rarefy.html | 6 +- reference/zero_otu.html | 6 +- search.json | 2 +- 79 files changed, 757 insertions(+), 790 deletions(-) diff --git a/404.html b/404.html index f87d0ee..ac6b653 100644 --- a/404.html +++ b/404.html @@ -31,7 +31,7 @@ dar - 0.99.10 + 0.99.11
+suppressPackageStartupMessages(library(mia))
+suppressPackageStartupMessages(library(phyloseq))
biome
Format
humann
Format
-The humann
format is another commonly used format in
-bioinformatics for microbiome sequencing data. Here’s how you can import
-data in humann
format to
-TreeSummarizedExperiment.
To convert data from the humann
format to the
-TreeSummarizedExperiment
format, you can use the
-mia::loadFromHumann()
function. Here’s a step-by-step
-example of how to perform this conversion:
-# Importing data from HUMAnN
-tse_humann <- mia::loadFromHumann(
- file = system.file("extdata", "humann_output.tsv", package = "mia")
-)
-
-tse_humann
-#> class: TreeSummarizedExperiment
-#> dim: 12 3
-#> metadata(0):
-#> assays(1): counts
-#> rownames(12): UNMAPPED UniRef50_unknown ... UniRef50_O83668:
-#> Fructose-bisphosphate
-#> aldolase|g__Bacteroides.s__Bacteroides_thetaiotaomicron
-#> UniRef50_O83668: Fructose-bisphosphate
-#> aldolase|g__Bacteroides.s__Bacteroides_stercoris
-#> rowData names(9): Gene_Family_long Gene_Family ... Genus Species
-#> colnames(3): sample1 sample2 sample3
-#> colData names(0):
-#> reducedDimNames(0):
-#> mainExpName: NULL
-#> altExpNames(0):
-#> rowLinks: NULL
-#> rowTree: NULL
-#> colLinks: NULL
-#> colTree: NULL
-
-# Recipe init
-rec <- dar::recipe(tse_humann)
-
-rec
-#> ── DAR Recipe ──────────────────────────────────────────────────────────────────
-#> Inputs:
-#>
-#> ℹ phyloseq object with 12 taxa and 3 samples
-#> ✖ undefined variable of interest. Use add_var() to add it to Recipe!
-#> ✖ undefined taxonomic level. Use add_tax() to add it to Recipe!
In this guide, we have explored various methods for importing @@ -595,11 +542,11 @@
+diff --git a/articles/filtering_subsetting.html b/articles/filtering_subsetting.html index 808ad92..2391c79 100644 --- a/articles/filtering_subsetting.html +++ b/articles/filtering_subsetting.html @@ -37,7 +37,7 @@ dar - 0.99.10 + 0.99.11devtools::session_info() #> ─ Session info ─────────────────────────────────────────────────────────────── #> setting value -#> version R Under development (unstable) (2024-03-28 r86224) +#> version R Under development (unstable) (2024-04-10 r86396) #> os Ubuntu 22.04.4 LTS #> system x86_64, linux-gnu #> ui X11 @@ -607,14 +554,14 @@
Session info#> collate en_US.UTF-8 #> ctype en_US.UTF-8 #> tz UTC -#> date 2024-04-05 +#> date 2024-04-17 #> pandoc 3.1.1 @ /usr/local/bin/ (via rmarkdown) #> #> ─ Packages ─────────────────────────────────────────────────────────────────── #> package * version date (UTC) lib source #> abind 1.4-5 2016-07-21 [1] CRAN (R 4.4.0) #> ade4 1.7-22 2023-02-06 [1] CRAN (R 4.4.0) -#> ape 5.7-1 2023-03-13 [1] CRAN (R 4.4.0) +#> ape 5.8 2024-04-11 [1] CRAN (R 4.5.0) #> assertthat 0.2.1 2019-03-21 [1] CRAN (R 4.4.0) #> beachmat 2.19.4 2024-03-28 [1] Bioconductor 3.19 (R 4.5.0) #> beeswarm 0.4.0 2021-06-01 [1] CRAN (R 4.4.0) @@ -635,13 +582,13 @@
Session info#> codetools 0.2-20 2024-03-31 [3] CRAN (R 4.5.0) #> colorspace 2.1-0 2023-01-23 [1] CRAN (R 4.4.0) #> crayon 1.5.2 2022-09-29 [2] CRAN (R 4.5.0) -#> dar 0.99.10 2024-04-05 [1] Bioconductor +#> dar 0.99.11 2024-04-17 [1] Bioconductor #> data.table 1.15.4 2024-03-30 [1] CRAN (R 4.5.0) #> DBI 1.2.2 2024-02-16 [1] CRAN (R 4.5.0) #> DECIPHER 2.31.4 2024-03-29 [1] Bioconductor 3.19 (R 4.5.0) #> decontam 1.23.0 2023-10-24 [1] Bioconductor #> DelayedArray 0.29.9 2024-03-01 [1] Bioconductor 3.19 (R 4.5.0) -#> DelayedMatrixStats 1.25.1 2023-11-09 [1] Bioconductor +#> DelayedMatrixStats 1.25.2 2024-04-11 [1] Bioconductor 3.19 (R 4.5.0) #> dendextend 1.17.1 2023-03-25 [1] CRAN (R 4.4.0) #> desc 1.4.3 2023-12-10 [2] CRAN (R 4.5.0) #> devtools 2.4.5 2022-10-11 [2] CRAN (R 4.5.0) @@ -655,8 +602,8 @@
Session info#> foreach 1.5.2 2022-02-02 [1] CRAN (R 4.4.0) #> fs 1.6.3 2023-07-20 [2] CRAN (R 4.5.0) #> generics 0.1.3 2022-07-05 [1] CRAN (R 4.4.0) -#> GenomeInfoDb * 1.39.11 2024-04-03 [1] Bioconductor 3.19 (R 4.5.0) -#> GenomeInfoDbData 1.2.12 2024-04-05 [1] Bioconductor +#> GenomeInfoDb * 1.39.13 2024-04-07 [1] Bioconductor 3.19 (R 4.5.0) +#> GenomeInfoDbData 1.2.12 2024-04-17 [1] Bioconductor #> GenomicRanges * 1.55.4 2024-03-18 [1] Bioconductor 3.19 (R 4.5.0) #> ggbeeswarm 0.7.2 2023-04-29 [1] CRAN (R 4.4.0) #> ggplot2 3.5.0 2024-02-23 [1] CRAN (R 4.5.0) @@ -675,16 +622,16 @@
Session info#> iterators 1.0.14 2022-02-05 [1] CRAN (R 4.4.0) #> jquerylib 0.1.4 2021-04-26 [2] CRAN (R 4.5.0) #> jsonlite 1.8.8 2023-12-04 [2] CRAN (R 4.5.0) -#> knitr 1.45 2023-10-30 [2] CRAN (R 4.5.0) +#> knitr 1.46 2024-04-06 [2] CRAN (R 4.5.0) #> later 1.3.2 2023-12-06 [2] CRAN (R 4.5.0) #> lattice 0.22-6 2024-03-20 [3] CRAN (R 4.5.0) #> lazyeval 0.2.2 2019-03-15 [1] CRAN (R 4.4.0) #> lifecycle 1.0.4 2023-11-07 [2] CRAN (R 4.5.0) #> magrittr 2.0.3 2022-03-30 [2] CRAN (R 4.5.0) -#> MASS 7.3-60.2 2024-03-29 [3] local +#> MASS 7.3-60.2 2024-04-11 [3] local #> Matrix 1.7-0 2024-03-22 [3] CRAN (R 4.5.0) #> MatrixGenerics * 1.15.0 2023-10-24 [1] Bioconductor -#> matrixStats * 1.2.0 2023-12-11 [1] CRAN (R 4.4.0) +#> matrixStats * 1.3.0 2024-04-11 [1] CRAN (R 4.5.0) #> memoise 2.0.1 2021-11-26 [2] CRAN (R 4.5.0) #> mgcv 1.9-1 2023-12-21 [3] CRAN (R 4.5.0) #> mia * 1.11.9 2024-03-26 [1] Bioconductor 3.19 (R 4.5.0) @@ -699,12 +646,12 @@
Session info#> pillar 1.9.0 2023-03-22 [2] CRAN (R 4.5.0) #> pkgbuild 1.4.4 2024-03-17 [2] CRAN (R 4.5.0) #> pkgconfig 2.0.3 2019-09-22 [2] CRAN (R 4.5.0) -#> pkgdown 2.0.7.9000 2024-04-05 [1] Github (r-lib/pkgdown@9b928b2) +#> pkgdown 2.0.8.9000 2024-04-17 [1] Github (r-lib/pkgdown@a319c9c) #> pkgload 1.3.4 2024-01-16 [2] CRAN (R 4.5.0) #> plotly 4.10.4 2024-01-13 [1] CRAN (R 4.4.0) #> plyr 1.8.9 2023-10-02 [1] CRAN (R 4.4.0) #> profvis 0.3.8 2023-05-02 [2] CRAN (R 4.5.0) -#> promises 1.2.1 2023-08-10 [2] CRAN (R 4.5.0) +#> promises 1.3.0 2024-04-05 [2] CRAN (R 4.5.0) #> purrr 1.0.2 2023-08-10 [2] CRAN (R 4.5.0) #> R6 2.5.1 2021-08-19 [2] CRAN (R 4.5.0) #> ragg 1.3.0 2024-03-13 [2] CRAN (R 4.5.0) @@ -714,14 +661,14 @@
Session info#> registry 0.5-1 2019-03-05 [1] CRAN (R 4.4.0) #> remotes 2.5.0 2024-03-17 [1] CRAN (R 4.5.0) #> reshape2 1.4.4 2020-04-09 [1] CRAN (R 4.4.0) -#> rhdf5 2.47.6 2024-03-11 [1] Bioconductor 3.19 (R 4.5.0) -#> rhdf5filters 1.15.4 2024-03-15 [1] Bioconductor 3.19 (R 4.5.0) -#> Rhdf5lib 1.25.1 2023-12-11 [1] Bioconductor 3.19 (R 4.4.0) +#> rhdf5 2.47.7 2024-04-12 [1] Bioconductor 3.19 (R 4.5.0) +#> rhdf5filters 1.15.5 2024-04-15 [1] Bioconductor 3.19 (R 4.5.0) +#> Rhdf5lib 1.25.3 2024-04-04 [1] Bioconductor 3.19 (R 4.5.0) #> rlang 1.1.3 2024-01-10 [2] CRAN (R 4.5.0) #> rmarkdown 2.26 2024-03-05 [2] CRAN (R 4.5.0) #> rsvd 1.0.5 2021-04-16 [1] CRAN (R 4.4.0) -#> S4Arrays 1.3.6 2024-03-04 [1] Bioconductor 3.19 (R 4.5.0) -#> S4Vectors * 0.41.5 2024-03-20 [1] Bioconductor 3.19 (R 4.5.0) +#> S4Arrays 1.3.7 2024-04-09 [1] Bioconductor 3.19 (R 4.5.0) +#> S4Vectors * 0.41.6 2024-04-05 [1] Bioconductor 3.19 (R 4.5.0) #> sass 0.4.9 2024-03-15 [2] CRAN (R 4.5.0) #> ScaledMatrix 1.11.1 2024-03-01 [1] Bioconductor 3.19 (R 4.5.0) #> scales 1.3.0 2023-11-28 [1] CRAN (R 4.4.0) @@ -731,7 +678,7 @@
Session info#> sessioninfo 1.2.2 2021-12-06 [2] CRAN (R 4.5.0) #> shiny 1.8.1.1 2024-04-02 [2] CRAN (R 4.5.0) #> SingleCellExperiment * 1.25.1 2024-03-27 [1] Bioconductor 3.19 (R 4.5.0) -#> SparseArray 1.3.4 2024-02-11 [1] Bioconductor 3.19 (R 4.5.0) +#> SparseArray 1.3.5 2024-04-09 [1] Bioconductor 3.19 (R 4.5.0) #> sparseMatrixStats 1.15.0 2023-10-24 [1] Bioconductor #> stringi 1.8.3 2023-12-11 [2] CRAN (R 4.5.0) #> stringr 1.5.1 2023-11-14 [2] CRAN (R 4.5.0) @@ -743,9 +690,10 @@
Session info#> tidyr 1.3.1 2024-01-24 [1] CRAN (R 4.4.0) #> tidyselect 1.2.1 2024-03-11 [1] CRAN (R 4.5.0) #> tidytree 0.4.6 2023-12-12 [1] CRAN (R 4.4.0) -#> treeio 1.27.0 2023-10-24 [1] Bioconductor +#> treeio 1.27.1 2024-04-08 [1] Bioconductor 3.19 (R 4.5.0) #> TreeSummarizedExperiment * 2.11.0 2023-10-24 [1] Bioconductor #> TSP 1.2-4 2023-04-04 [1] CRAN (R 4.4.0) +#> UCSC.utils 0.99.5 2024-04-04 [1] Bioconductor 3.19 (R 4.5.0) #> UpSetR 1.4.0 2019-05-22 [1] CRAN (R 4.4.0) #> urlchecker 1.0.1 2021-11-30 [2] CRAN (R 4.5.0) #> usethis 2.2.3 2024-02-19 [2] CRAN (R 4.5.0) @@ -777,13 +725,11 @@
Session info - -
Developed by Francesc Catala-Moll.
+Developed by Francesc Catala-Moll.
@@ -217,7 +217,7 @@ Session infodevtools::session_info() #> ─ Session info ─────────────────────────────────────────────────────────────── #> setting value -#> version R Under development (unstable) (2024-03-28 r86224) +#> version R Under development (unstable) (2024-04-10 r86396) #> os Ubuntu 22.04.4 LTS #> system x86_64, linux-gnu #> ui X11 @@ -225,13 +225,13 @@
Session info#> collate en_US.UTF-8 #> ctype en_US.UTF-8 #> tz UTC -#> date 2024-04-05 +#> date 2024-04-17 #> pandoc 3.1.1 @ /usr/local/bin/ (via rmarkdown) #> #> ─ Packages ─────────────────────────────────────────────────────────────────── #> package * version date (UTC) lib source #> ade4 1.7-22 2023-02-06 [1] CRAN (R 4.4.0) -#> ape 5.7-1 2023-03-13 [1] CRAN (R 4.4.0) +#> ape 5.8 2024-04-11 [1] CRAN (R 4.5.0) #> assertthat 0.2.1 2019-03-21 [1] CRAN (R 4.4.0) #> Biobase 2.63.1 2024-03-29 [1] Bioconductor 3.19 (R 4.5.0) #> BiocGenerics 0.49.1 2023-11-01 [1] Bioconductor @@ -246,7 +246,7 @@
Session info#> codetools 0.2-20 2024-03-31 [3] CRAN (R 4.5.0) #> colorspace 2.1-0 2023-01-23 [1] CRAN (R 4.4.0) #> crayon 1.5.2 2022-09-29 [2] CRAN (R 4.5.0) -#> dar * 0.99.10 2024-04-05 [1] Bioconductor +#> dar * 0.99.11 2024-04-17 [1] Bioconductor #> data.table 1.15.4 2024-03-30 [1] CRAN (R 4.5.0) #> dendextend 1.17.1 2023-03-25 [1] CRAN (R 4.4.0) #> desc 1.4.3 2023-12-10 [2] CRAN (R 4.5.0) @@ -262,8 +262,8 @@
Session info#> furrr 0.3.1 2022-08-15 [1] CRAN (R 4.4.0) #> future 1.33.2 2024-03-26 [1] CRAN (R 4.5.0) #> generics 0.1.3 2022-07-05 [1] CRAN (R 4.4.0) -#> GenomeInfoDb 1.39.11 2024-04-03 [1] Bioconductor 3.19 (R 4.5.0) -#> GenomeInfoDbData 1.2.12 2024-04-05 [1] Bioconductor +#> GenomeInfoDb 1.39.13 2024-04-07 [1] Bioconductor 3.19 (R 4.5.0) +#> GenomeInfoDbData 1.2.12 2024-04-17 [1] Bioconductor #> ggplot2 3.5.0 2024-02-23 [1] CRAN (R 4.5.0) #> globals 0.16.3 2024-03-08 [1] CRAN (R 4.5.0) #> glue 1.7.0 2024-01-09 [2] CRAN (R 4.5.0) @@ -279,14 +279,14 @@
Session info#> iterators 1.0.14 2022-02-05 [1] CRAN (R 4.4.0) #> jquerylib 0.1.4 2021-04-26 [2] CRAN (R 4.5.0) #> jsonlite 1.8.8 2023-12-04 [2] CRAN (R 4.5.0) -#> knitr 1.45 2023-10-30 [2] CRAN (R 4.5.0) +#> knitr 1.46 2024-04-06 [2] CRAN (R 4.5.0) #> later 1.3.2 2023-12-06 [2] CRAN (R 4.5.0) #> lattice 0.22-6 2024-03-20 [3] CRAN (R 4.5.0) #> lazyeval 0.2.2 2019-03-15 [1] CRAN (R 4.4.0) #> lifecycle 1.0.4 2023-11-07 [2] CRAN (R 4.5.0) #> listenv 0.9.1 2024-01-29 [1] CRAN (R 4.4.0) #> magrittr 2.0.3 2022-03-30 [2] CRAN (R 4.5.0) -#> MASS 7.3-60.2 2024-03-29 [3] local +#> MASS 7.3-60.2 2024-04-11 [3] local #> Matrix 1.7-0 2024-03-22 [3] CRAN (R 4.5.0) #> memoise 2.0.1 2021-11-26 [2] CRAN (R 4.5.0) #> mgcv 1.9-1 2023-12-21 [3] CRAN (R 4.5.0) @@ -301,12 +301,12 @@
Session info#> pillar 1.9.0 2023-03-22 [2] CRAN (R 4.5.0) #> pkgbuild 1.4.4 2024-03-17 [2] CRAN (R 4.5.0) #> pkgconfig 2.0.3 2019-09-22 [2] CRAN (R 4.5.0) -#> pkgdown 2.0.7.9000 2024-04-05 [1] Github (r-lib/pkgdown@9b928b2) +#> pkgdown 2.0.8.9000 2024-04-17 [1] Github (r-lib/pkgdown@a319c9c) #> pkgload 1.3.4 2024-01-16 [2] CRAN (R 4.5.0) #> plotly 4.10.4 2024-01-13 [1] CRAN (R 4.4.0) #> plyr 1.8.9 2023-10-02 [1] CRAN (R 4.4.0) #> profvis 0.3.8 2023-05-02 [2] CRAN (R 4.5.0) -#> promises 1.2.1 2023-08-10 [2] CRAN (R 4.5.0) +#> promises 1.3.0 2024-04-05 [2] CRAN (R 4.5.0) #> purrr 1.0.2 2023-08-10 [2] CRAN (R 4.5.0) #> R6 2.5.1 2021-08-19 [2] CRAN (R 4.5.0) #> ragg 1.3.0 2024-03-13 [2] CRAN (R 4.5.0) @@ -316,12 +316,12 @@
Session info#> registry 0.5-1 2019-03-05 [1] CRAN (R 4.4.0) #> remotes 2.5.0 2024-03-17 [1] CRAN (R 4.5.0) #> reshape2 1.4.4 2020-04-09 [1] CRAN (R 4.4.0) -#> rhdf5 2.47.6 2024-03-11 [1] Bioconductor 3.19 (R 4.5.0) -#> rhdf5filters 1.15.4 2024-03-15 [1] Bioconductor 3.19 (R 4.5.0) -#> Rhdf5lib 1.25.1 2023-12-11 [1] Bioconductor 3.19 (R 4.4.0) +#> rhdf5 2.47.7 2024-04-12 [1] Bioconductor 3.19 (R 4.5.0) +#> rhdf5filters 1.15.5 2024-04-15 [1] Bioconductor 3.19 (R 4.5.0) +#> Rhdf5lib 1.25.3 2024-04-04 [1] Bioconductor 3.19 (R 4.5.0) #> rlang 1.1.3 2024-01-10 [2] CRAN (R 4.5.0) #> rmarkdown 2.26 2024-03-05 [2] CRAN (R 4.5.0) -#> S4Vectors 0.41.5 2024-03-20 [1] Bioconductor 3.19 (R 4.5.0) +#> S4Vectors 0.41.6 2024-04-05 [1] Bioconductor 3.19 (R 4.5.0) #> sass 0.4.9 2024-03-15 [2] CRAN (R 4.5.0) #> scales 1.3.0 2023-11-28 [1] CRAN (R 4.4.0) #> seriation 1.5.4 2023-12-12 [1] CRAN (R 4.4.0) @@ -336,6 +336,7 @@
Session info#> tidyr 1.3.1 2024-01-24 [1] CRAN (R 4.4.0) #> tidyselect 1.2.1 2024-03-11 [1] CRAN (R 4.5.0) #> TSP 1.2-4 2023-04-04 [1] CRAN (R 4.4.0) +#> UCSC.utils 0.99.5 2024-04-04 [1] Bioconductor 3.19 (R 4.5.0) #> UpSetR 1.4.0 2019-05-22 [1] CRAN (R 4.4.0) #> urlchecker 1.0.1 2021-11-30 [2] CRAN (R 4.5.0) #> usethis 2.2.3 2024-02-19 [2] CRAN (R 4.5.0) @@ -365,13 +366,11 @@
Session info - -
Developed by Francesc Catala-Moll.
+Developed by Francesc Catala-Moll.
Developed by Francesc Catala-Moll.
+Developed by Francesc Catala-Moll.
Catala-Moll F (2024). dar: Differential Abundance Analysis by Consensus. -R package version 0.99.10, +R package version 0.99.11, https://microbialgenomics-irsicaixaorg.github.io/dar/, https://github.com/MicrobialGenomics-IrsicaixaOrg/dar.
@Manual{, title = {dar: Differential Abundance Analysis by Consensus}, author = {Francesc Catala-Moll}, year = {2024}, - note = {R package version 0.99.10, + note = {R package version 0.99.11, https://microbialgenomics-irsicaixaorg.github.io/dar/}, url = {https://github.com/MicrobialGenomics-IrsicaixaOrg/dar}, }@@ -87,11 +87,11 @@
NEWS.md
+