diff --git a/404.html b/404.html index ee5f3aa..1babfb4 100644 --- a/404.html +++ b/404.html @@ -32,7 +32,7 @@ bugphyzz - 0.99.4 + 0.99.5 diff --git a/CODE_OF_CONDUCT.html b/CODE_OF_CONDUCT.html index 49dfbeb..adb0a35 100644 --- a/CODE_OF_CONDUCT.html +++ b/CODE_OF_CONDUCT.html @@ -17,7 +17,7 @@ bugphyzz - 0.99.4 + 0.99.5 diff --git a/CONTRIBUTING.html b/CONTRIBUTING.html index 241563a..7b46771 100644 --- a/CONTRIBUTING.html +++ b/CONTRIBUTING.html @@ -17,7 +17,7 @@ bugphyzz - 0.99.4 + 0.99.5 diff --git a/SUPPORT.html b/SUPPORT.html index 1a9ac56..da8f7ca 100644 --- a/SUPPORT.html +++ b/SUPPORT.html @@ -17,7 +17,7 @@ bugphyzz - 0.99.4 + 0.99.5 diff --git a/articles/attributes.html b/articles/attributes.html index dfa5aba..e26d1c5 100644 --- a/articles/attributes.html +++ b/articles/attributes.html @@ -32,7 +32,7 @@ bugphyzz - 0.99.4 + 0.99.5 @@ -136,7 +136,7 @@

Session info#> bit64 4.0.5 2020-08-30 [1] RSPM (R 4.4.0) #> blob 1.2.4 2023-03-17 [1] RSPM (R 4.4.0) #> bslib 0.8.0 2024-07-29 [2] RSPM (R 4.4.0) -#> bugphyzz * 0.99.4 2024-08-15 [1] Bioconductor +#> bugphyzz * 0.99.5 2024-08-15 [1] Bioconductor #> cachem 1.1.0 2024-05-16 [2] RSPM (R 4.4.0) #> cli 3.6.3 2024-06-21 [2] RSPM (R 4.4.0) #> crayon 1.5.3 2024-06-20 [2] RSPM (R 4.4.0) diff --git a/articles/bugphyzz.html b/articles/bugphyzz.html index 7d570a8..9308504 100644 --- a/articles/bugphyzz.html +++ b/articles/bugphyzz.html @@ -32,7 +32,7 @@ bugphyzz - 0.99.4 + 0.99.5 @@ -679,7 +679,7 @@

Session information#> bluster 1.14.0 2024-04-30 [1] Bioconductor 3.19 (R 4.4.1) #> bookdown 0.40 2024-07-02 [1] RSPM (R 4.4.0) #> bslib 0.8.0 2024-07-29 [2] RSPM (R 4.4.0) -#> bugphyzz * 0.99.4 2024-08-15 [1] Bioconductor +#> bugphyzz * 0.99.5 2024-08-15 [1] Bioconductor #> cachem 1.1.0 2024-05-16 [2] RSPM (R 4.4.0) #> cli 3.6.3 2024-06-21 [2] RSPM (R 4.4.0) #> cluster 2.1.6 2023-12-01 [3] CRAN (R 4.4.1) diff --git a/articles/index.html b/articles/index.html index 5463c62..1f1384c 100644 --- a/articles/index.html +++ b/articles/index.html @@ -17,7 +17,7 @@ bugphyzz - 0.99.4 + 0.99.5 diff --git a/articles/sources.html b/articles/sources.html index 8bd79f7..d630f50 100644 --- a/articles/sources.html +++ b/articles/sources.html @@ -32,7 +32,7 @@ bugphyzz - 0.99.4 + 0.99.5 diff --git a/authors.html b/authors.html index aac26f7..273873f 100644 --- a/authors.html +++ b/authors.html @@ -17,7 +17,7 @@ bugphyzz - 0.99.4 + 0.99.5 @@ -95,13 +95,13 @@

Citation

Gamboa S, Waldron L, Eckenrode K, Ye J, Wokaty J (2024). bugphyzz: A harmonized data resource and software for enrichment analysis of microbial physiologies. -R package version 0.99.4, https://github.com/waldronlab/bugphyzz. +R package version 0.99.5, https://github.com/waldronlab/bugphyzz. 

@Manual{,
   title = {bugphyzz: A harmonized data resource and software for enrichment analysis of microbial physiologies},
   author = {Samuel Gamboa and Levi Waldron and Kelly Eckenrode and Jonathan Ye and Jennifer Wokaty},
   year = {2024},
-  note = {R package version 0.99.4},
+  note = {R package version 0.99.5},
   url = {https://github.com/waldronlab/bugphyzz},
 }
diff --git a/index.html b/index.html index da2a689..0233d83 100644 --- a/index.html +++ b/index.html @@ -33,7 +33,7 @@ bugphyzz - 0.99.4 + 0.99.5 diff --git a/news/index.html b/news/index.html index b35c026..a21963e 100644 --- a/news/index.html +++ b/news/index.html @@ -17,7 +17,7 @@ bugphyzz - 0.99.4 + 0.99.5 diff --git a/pkgdown.yml b/pkgdown.yml index eb87db1..99459e9 100644 --- a/pkgdown.yml +++ b/pkgdown.yml @@ -5,7 +5,7 @@ articles: articles/attributes: attributes.html bugphyzz: bugphyzz.html sources: sources.html -last_built: 2024-08-15T14:01Z +last_built: 2024-08-15T18:36Z urls: reference: https://waldronlab.io/bugphyzz/reference article: https://waldronlab.io/bugphyzz/articles diff --git a/reference/getTaxonSignatures.html b/reference/getTaxonSignatures.html index 9d81de1..67b8ae1 100644 --- a/reference/getTaxonSignatures.html +++ b/reference/getTaxonSignatures.html @@ -19,7 +19,7 @@ bugphyzz - 0.99.4 + 0.99.5 @@ -103,7 +103,7 @@

Examples

taxid <- "562"
 taxonName <- "Escherichia coli"
 bp <- importBugphyzz()
-#> Using data downloaded on 2024-08-15 14:00:05.
+#> Using data downloaded on 2024-08-15 18:34:33.
 sig_names_1 <- getTaxonSignatures(taxid, bp)
 sig_names_2 <- getTaxonSignatures(taxonName, bp, taxIdType = "Taxon_name")
 
diff --git a/reference/importBugphyzz.html b/reference/importBugphyzz.html
index 562f67b..9dc3c1a 100644
--- a/reference/importBugphyzz.html
+++ b/reference/importBugphyzz.html
@@ -20,7 +20,7 @@
       
       
         bugphyzz
-        0.99.4
+        0.99.5
@@ -163,7 +163,7 @@

SourcesExamples


 bp <- importBugphyzz()
-#> Using data downloaded on 2024-08-15 14:00:05.
+#> Using data downloaded on 2024-08-15 18:34:33.
 names(bp)
 #>  [1] "animal pathogen"                      
 #>  [2] "antimicrobial sensitivity"            
diff --git a/reference/index.html b/reference/index.html
index 89b9310..3d47b22 100644
--- a/reference/index.html
+++ b/reference/index.html
@@ -17,7 +17,7 @@
       
       
         bugphyzz
-        0.99.4
+        0.99.5
diff --git a/reference/makeSignatures.html b/reference/makeSignatures.html index 91c51bf..0c536b5 100644 --- a/reference/makeSignatures.html +++ b/reference/makeSignatures.html @@ -19,7 +19,7 @@ bugphyzz - 0.99.4 + 0.99.5 @@ -138,7 +138,7 @@

Value

Examples


 bp <- importBugphyzz()
-#> Using data downloaded on 2024-08-15 14:00:05.
+#> Using data downloaded on 2024-08-15 18:34:33.
 sigs <- purrr::map(bp, makeSignatures)
 sigs <- purrr::list_flatten(sigs, name_spec = "{inner}")
 
diff --git a/reference/physiologies.html b/reference/physiologies.html
index 2bca16f..64cf185 100644
--- a/reference/physiologies.html
+++ b/reference/physiologies.html
@@ -19,7 +19,7 @@
       
       
         bugphyzz
-        0.99.4
+        0.99.5
diff --git a/reference/showPhys.html b/reference/showPhys.html index 4b5b5bc..09c28c5 100644 --- a/reference/showPhys.html +++ b/reference/showPhys.html @@ -19,7 +19,7 @@ bugphyzz - 0.99.4 + 0.99.5