Add McKim to authors; fix repo URLs and stale package references

DESCRIPTION

@@ -9,7 +9,9 @@ Authors@R: c(
     person("Charmie", "Vang", , "charmie.vang@cuanschutz.edu", role = "ctb"),
     person("Emily", "Boyer", , "emily.boyer@cuanschutz.edu", role = "ctb"),
     person("Raymond", "Lesiyon", , "raymond.lesiyon@cuanschutz.edu", role = "ctb"),
-    person("David", "Mayer", , "david.mayer@cuanschutz.edu", role = "ctb")
+    person("David", "Mayer", , "david.mayer@cuanschutz.edu", role = "ctb"),
+    person("Alexander", "McKim", , "alexander.mckim@cuanschutz.edu", role = "ctb",
+           comment = c(ORCID = "0000-0002-7802-7591"))
   )
 Maintainer: Janani Ravi <janani.ravi@cuanschutz.edu>
 Description: amRdata starts with a user's species query and downloads all
@@ -24,8 +26,8 @@ Encoding: UTF-8
 Roxygen: list(markdown = TRUE)
 Depends:
     R (>= 4.5.0)
-URL: https://github.com/JRaviLab/amR_data
-BugReports: https://github.com/JRaviLab/amR_data/issues
+URL: https://github.com/JRaviLab/amRdata
+BugReports: https://github.com/JRaviLab/amRdata/issues
 Imports:
     arrow,
     BiocParallel,

README.Rmd

@@ -277,7 +277,7 @@ amRdata is designed to work seamlessly with other amR packages:
 ```r
 library(amRdata)
 library(amRml)
-library(amRshiny)
+library(amRviz)
 
 # 1. Curate data
 prepareGenomes("Shigella flexneri")
@@ -294,17 +294,18 @@ launch_dashboard()
 
 - [amR](https://github.com/JRaviLab/amR): Suite metapackage
 - [amRml](https://github.com/JRaviLab/amRml): ML for AMR prediction
-- [amRshiny](https://github.com/JRaviLab/amRshiny): Interactive dashboard
+- [amRviz](https://github.com/JRaviLab/amRviz): Interactive dashboard
 
 ## Citation
 If you use `amRdata` in your research, please cite:
 
-```
-Brenner E, Ghosh A, Wolfe E, Boyer E, Vang C, Lesiyon R, Mayer D, Ravi J. (2026).
-amR: an R package suite to predict antimicrobial resistance in bacterial pathogens.
-R package version 0.99.0.
-https://github.com/JRaviLab/amR
-```
+> Ghosh A^, Brenner EP^, Boyer EA, McKim AP, Vang CK, Wolfe EP, Mayer D, Lesiyon RL, Ravi J.
+>
+> amR: an R package suite to predict antimicrobial resistance in bacterial pathogens.
+>
+> bioRxiv. 2026. DOI: [10.64898/2026.07.10.734579](https://doi.org/10.64898/2026.07.10.734579).
+
+^ Co-first authors
 
 ## Contributing
 

README.md

@@ -290,7 +290,7 @@ amRdata is designed to work seamlessly with other amR packages:
 ``` r
 library(amRdata)
 library(amRml)
-library(amRshiny)
+library(amRviz)
 
 # 1. Curate data
 prepareGenomes("Shigella flexneri")
@@ -307,17 +307,22 @@ launch_dashboard()
 
 - [amR](https://github.com/JRaviLab/amR): Suite metapackage
 - [amRml](https://github.com/JRaviLab/amRml): ML for AMR prediction
-- [amRshiny](https://github.com/JRaviLab/amRshiny): Interactive
-  dashboard
+- [amRviz](https://github.com/JRaviLab/amRviz): Interactive dashboard
 
 ## Citation
 
 If you use `amRdata` in your research, please cite:
 
-    Brenner E, Ghosh A, Wolfe E, Boyer E, Vang C, Lesiyon R, Mayer D, Ravi J. (2026).
-    amR: an R package suite to predict antimicrobial resistance in bacterial pathogens.
-    R package version 0.99.0.
-    https://github.com/JRaviLab/amR
+> Ghosh A^, Brenner EP^, Boyer EA, McKim AP, Vang CK, Wolfe EP, Mayer D,
+> Lesiyon RL, Ravi J.
+>
+> amR: an R package suite to predict antimicrobial resistance in
+> bacterial pathogens.
+>
+> bioRxiv. 2026. DOI:
+> [10.64898/2026.07.10.734579](https://doi.org/10.64898/2026.07.10.734579).
+
+^ Co-first authors
 
 ## Contributing