Update README.md and fix check warnings.

.github/workflows/check-bioc.yaml

@@ -36,7 +36,7 @@ name: R-CMD-check-bioc
 env:
   has_testthat: 'true'
   run_covr: 'true'
-  run_pkgdown: 'false'
+  run_pkgdown: 'true'
   has_RUnit: 'false'
   cache-version: 'cache-v1'
   run_docker: 'false'
@@ -55,11 +55,11 @@ jobs:
       matrix:
         config:
           # - { os: ubuntu-latest, r: 'devel', bioc: '3.19', cont: "bioconductor/bioconductor_docker:devel", rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest" }
-          # - { os: ubuntu-latest, r: '4.3.2', bioc: '3.19', cont: "bioconductor/bioconductor_docker:devel", rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest" }
+          # - { os: ubuntu-latest, r: '4.3.3', bioc: '3.19', cont: "bioconductor/bioconductor_docker:devel", rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest" }
           - { os: ubuntu-latest, r: 'devel', bioc: '3.18', cont: "bioconductor/bioconductor_docker:RELEASE_3_18", rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest" }
-          # - { os: ubuntu-latest, r: '4.3.2', bioc: '3.18', cont: "bioconductor/bioconductor_docker:RELEASE_3_18", rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest" }
-          - { os: macOS-latest, r: '4.3.2', bioc: '3.18'}
-          - { os: windows-latest, r: '4.3.2', bioc: '3.18'}
+          # - { os: ubuntu-latest, r: '4.3.3', bioc: '3.18', cont: "bioconductor/bioconductor_docker:RELEASE_3_18", rspm: "https://packagemanager.rstudio.com/cran/__linux__/focal/latest" }
+          - { os: macOS-latest, r: '4.3.3', bioc: '3.18'}
+          - { os: windows-latest, r: '4.3.3', bioc: '3.18'}
           ## Check https://github.com/r-lib/actions/tree/master/examples
           ## for examples using the http-user-agent
 

README.md

@@ -2,7 +2,9 @@
 # smartid: Scoring and MARker identification method based on modified Tf-IDf
 
 <!-- badges: start -->
-[![R-CMD-check](https://github.com/DavisLaboratory/smartid/actions/workflows/R-CMD-check.yaml/badge.svg)](https://github.com/DavisLaboratory/smartid/actions/workflows/R-CMD-check.yaml)
+[![R-CMD-check](https://github.com/DavisLaboratory/smartid/workflows/R-CMD-check-bioc/badge.svg)](https://github.com/DavisLaboratory/smartid/actions)
+[![Coverage status](https://codecov.io/gh/DavisLaboratory/smartid/branch/devel/graph/badge.svg)](https://codecov.io/github/DavisLaboratory/smartid?branch=devel)
+[![BioC status](https://bioconductor.org/shields/years-in-bioc/smartid.svg)](https://bioconductor.org/packages/smartid/)
 <!-- badges: end -->
 
 An R package for automatically identify group specific signature and score cells based on given gene sets on scRNA data.
@@ -11,6 +13,8 @@ smartid is an R package designed for automated identification of signatures of i
 
 This package is particularly useful for the marker identification of novel or rare group populations in various biological and medical applications, including cancer research and developmental biology.
 
+[**Check out the standard demonstration.**](https://davislaboratory.github.io/smartid/articles/smartid_Demo.html)
+
 ## Installation
 
 You can install the development version of smartid like so: