From 0096758a3771267b1f7045e8d3f6a60749e0482f Mon Sep 17 00:00:00 2001 From: lassedochreden Date: Thu, 4 Jan 2024 11:07:44 +0100 Subject: [PATCH] updated with paper citation --- DESCRIPTION | 2 +- NEWS | 3 +++ README.md | 10 ++++++---- inst/CITATION | 12 ++++++++++++ 4 files changed, 22 insertions(+), 5 deletions(-) create mode 100644 inst/CITATION diff --git a/DESCRIPTION b/DESCRIPTION index 79949d3..1e099fc 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,5 +1,5 @@ Package: cytoviewer -Version: 1.3.0 +Version: 1.3.1 Title: An interactive multi-channel image viewer for R Description: This R package supports interactive visualization of multi-channel images diff --git a/NEWS b/NEWS index 4685e50..02e26ed 100644 --- a/NEWS +++ b/NEWS @@ -39,3 +39,6 @@ Changes in version 1.1.2 (2023-10-09): Changes in version 1.1.3 (2023-10-19): + enlarged default display area and changed default color settings + +Changes in version 1.3.1 (2024-01-04): ++ updated README and added citation file diff --git a/README.md b/README.md index c574a4d..677d784 100644 --- a/README.md +++ b/README.md @@ -20,7 +20,9 @@ Channels) and cell-level visualization (Masks). It allows users to overlay individual images with segmentation masks, integrates well with [SingleCellExperiment](https://bioconductor.org/packages/release/bioc/html/SingleCellExperiment.html) / [SpatialExperiment](https://bioconductor.org/packages/release/bioc/html/SingleCellExperiment.html) and [CytoImageList](https://www.bioconductor.org/packages/release/bioc/html/cytomapper.html) -objects for metadata and image visualization and supports image downloads. +objects for metadata and image visualization and supports image downloads. + +Read the **BMC Bioinformatics paper** here: [doi.org/10.1186/s12859-023-05546-z](doi.org/10.1186/s12859-023-05546-z) ## Check status @@ -102,11 +104,11 @@ issue a pull request. ## Citation -If you are using `cytoviewer` in your work, please cite the released preprint as: +If you are using `cytoviewer` in your work, please cite the paper as: ``` -Lasse Meyer, Nils Eling, and Bernd Bodenmiller (2023). cytoviewer: an R/Bioconductor package for interactive -visualization and exploration of highly multiplexed imaging data, biorxiv, doi.org/10.1101/2023.05.24.542115 +Meyer, L., Eling, N., & Bodenmiller, B. (2024). cytoviewer: an R/Bioconductor package for interactive visualization +and exploration of highly multiplexed imaging data. BMC Bioinformatics, doi.org/10.1186/s12859-023-05546-z ``` diff --git a/inst/CITATION b/inst/CITATION new file mode 100644 index 0000000..f154aab --- /dev/null +++ b/inst/CITATION @@ -0,0 +1,12 @@ + +citHeader("To cite the package 'cytoviewer' in publications use:") + +citEntry(entry="article", + title = "cytoviewer: an R/Bioconductor package for interactive visualization and exploration of highly multiplexed imaging data", + author = personList(as.person("Lasse Meyer"), + as.person("Nils Eling"), + as.person("Bernd Bodenmiller")), + year = 2024, + journal = "BMC Bioinformatics", + doi = "doi.org/10.1186/s12859-023-05546-z", + textVersion = "Lasse Meyer, Nils Eling, Bernd Bodenmiller (2024). cytoviewer: an R/Bioconductor package for interactive visualization and exploration of highly multiplexed imaging data. BMC Bioinformatics, doi: doi.org/10.1186/s12859-023-05546-z") \ No newline at end of file