diff --git a/DESCRIPTION b/DESCRIPTION index 038dbfe..d8bcd23 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,6 +1,6 @@ Package: geposan Title: Gene Position Analysis -Version: 1.1.0 +Version: 1.0.0 Authors@R: person( "Elias", @@ -28,7 +28,9 @@ Imports: rlang, progress Suggests: + biomaRt, + httr, plotly, rlog, - RMariaDB, + stringr, usethis diff --git a/R/plots.R b/R/plots.R index 7971c10..706a4ed 100644 --- a/R/plots.R +++ b/R/plots.R @@ -718,9 +718,8 @@ plot_scores_by_position <- function(ranking, "Percentile: {round(percentile * 100, digits = 2)}%" ), marker = list( - size = 3, - color = "#919191", - opacity = 0.5 + color = base_color(), + size = 5 ), hoverinfo = "text" ) |> diff --git a/README.md b/README.md index b49574f..37fa0a1 100644 --- a/README.md +++ b/README.md @@ -17,17 +17,6 @@ remotes::install_github("johrpan/geposan") See [this page](https://remotes.r-lib.org/reference/install_git.html) for more information on this command. -## Publication - -This method and its implementation have been peer-reviewed and published in -NAR Genomics and Bioinformatics. If you use the package in your research or -would like to refer to our methodology, please cite the following paper: - -Elias F Projahn, Georg Fuellen, Michael Walter, Steffen Möller, Proposing -candidate genes under telomeric control based on cross-species position data, -NAR Genomics and Bioinformatics, Volume 6, Issue 2, June 2024, lqae037, -https://doi.org/10.1093/nargab/lqae037 - ## Graphical interface Please also take a look at the interactive graphical web interface for geposan diff --git a/inst/CITATION b/inst/CITATION deleted file mode 100644 index 17d6334..0000000 --- a/inst/CITATION +++ /dev/null @@ -1,11 +0,0 @@ -bibentry( - bibtype = "Article", - title = "Proposing candidate genes under telomeric control based on cross-species position data", - author = "Elias F Projahn, Georg Fuellen, Michael Walter, Steffen Möller", - journal = "NAR Genomics and Bioinformatics", - year = 2024, - volume = 6, - number = 2, - pages = "lqae037", - doi = "10.1093/nargab/lqae037" -)