v0.2.7 link to citation and zenodo

emosca-cnr · Jun 28, 2024 · c78c74b · c78c74b
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,7 +1,7 @@
 Package: margheRita
 Title: Mass spectrometry-based metabolomics data analysis
-Version: 0.2.6
-Date: 2024-06-19
+Version: 0.2.7
+Date: 2024-06-28
 Authors@R: 
   c(person(given = "Ettore", family = "Mosca", role = c("aut", "cre"), email = "ettore.mosca@itb.cnr.it", comment = c(ORCID = "0000-0002-3102-5150")),
   person(given = "Zahrasadat", family = "Aalavikakhki", role = "aut", email = "zahrasadat.alavikakhki@studenti.unimi.it"),

diff --git a/NEWS b/NEWS
@@ -1,4 +1,10 @@
-03 May 2025, v0.2.5
+28 June 2024, v0.2.7
+-- addition of citation and link to zenodo dataset
+
+19 June 2024, v0.2.6
+-- various minor improvements in code, function documentation and vignettes
+
+03 May 2024, v0.2.5
 -- various minor improvements in code, function documentation and vignettes
 
 29 March 2024, v0.2.3

diff --git a/README.md b/README.md
@@ -18,7 +18,7 @@ Documentation: https://emosca-cnr.github.io/margheRita
 
 Source code: https://github.com/emosca-cnr/margheRita
 
-Citation: ...
+Citation:  Ettore Mosca, Marynka Ulaszewska, Zahrasadat Alavikakhki, Edoardo Niccolò Bellini, Valeria Mannella, Gianfranco Frigerio, Denise Drago, Annapaola Andolfo. MargheRita: an R package for LC-MS/MS SWATH metabolomics data analysis and confident metabolite identification based on a spectral library of reference standards. bioRxiv 2024.06.20.599545; doi: https://doi.org/10.1101/2024.06.20.599545
 
 Contacts:
 
@@ -27,17 +27,5 @@ Contacts:
 
 # Installation
 
-The package requires a series of other R packages, which are availble in [CRAN](https://cran.r-project.org/), [Bioconductor](https://www.bioconductor.org/) and [github](https://github.com/). In most of the cases, the following instructions guarantee that all such dependencies are installed:
-
-```{r, eval=FALSE}
-install.packages("devtools")
-devtools::install_github(c("pcastellanoescuder/POMA", "antonvsdata/notame"))
-
-if (!require("BiocManager", quietly = TRUE)){
-  install.packages("BiocManager")
-}
-BiocManager::install(c("clusterProfiler", "pcaMethods"))
-
-devtools::install_github("emosca-cnr/margheRita", dependencies = T)
-```
+See documentation at https://emosca-cnr.github.io/margheRita
 
diff --git a/docs/404.html b/docs/404.html
diff --git a/docs/articles/index.html b/docs/articles/index.html
diff --git a/docs/articles/margheRita.html b/docs/articles/margheRita.html
diff --git a/docs/authors.html b/docs/authors.html
diff --git a/docs/index.html b/docs/index.html
diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
@@ -3,5 +3,5 @@ pkgdown: 2.0.7
 pkgdown_sha: ~
 articles:
   margheRita: margheRita.html
-last_built: 2024-06-19T14:05Z
+last_built: 2024-06-28T16:15Z
 
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diff --git a/docs/reference/filtering.html b/docs/reference/filtering.html
diff --git a/docs/reference/get_spectra_list_from_vector.html b/docs/reference/get_spectra_list_from_vector.html
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diff --git a/docs/reference/h_map_MSMS_comparison.html b/docs/reference/h_map_MSMS_comparison.html
diff --git a/docs/reference/heatscatter_chromatography.html b/docs/reference/heatscatter_chromatography.html
diff --git a/docs/reference/imputation.html b/docs/reference/imputation.html
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diff --git a/docs/reference/keep_strongest_representative.html b/docs/reference/keep_strongest_representative.html
diff --git a/docs/reference/mL_demo.html b/docs/reference/mL_demo.html
diff --git a/docs/reference/mR_pca.html b/docs/reference/mR_pca.html
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diff --git a/docs/reference/metabolite_identification.html b/docs/reference/metabolite_identification.html