From 399f8a4c2fd0ae3a8ba7c7ddbcd90fbd816831d9 Mon Sep 17 00:00:00 2001 From: Gene233 Date: Fri, 22 Mar 2024 02:40:30 +1100 Subject: [PATCH] Update README.md and fix check warnings. --- .github/workflows/check-bioc.yaml | 10 +++++----- README.md | 6 +++++- 2 files changed, 10 insertions(+), 6 deletions(-) diff --git a/.github/workflows/check-bioc.yaml b/.github/workflows/check-bioc.yaml index 651dd25..10ddb8a 100644 --- a/.github/workflows/check-bioc.yaml +++ b/.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 diff --git a/README.md b/README.md index 3056158..134d2cb 100644 --- a/README.md +++ b/README.md @@ -2,7 +2,9 @@ # smartid: Scoring and MARker identification method based on modified Tf-IDf -[![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/) 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: