I recommend citing other software you used

[lcolladotor]

Hi @lahuuki,

I recommend that you expand

DeconvoBuddies/vignettes/DeconvoBuddies.Rmd

Lines 41 to 52 in ce1cb4c

	## Write bibliography information
	bib <- c(
	R = citation(),
	BiocStyle = citation("BiocStyle")[1],
	knitr = citation("knitr")[1],
	RefManageR = citation("RefManageR")[1],
	rmarkdown = citation("rmarkdown")[1],
	sessioninfo = citation("sessioninfo")[1],
	testthat = citation("testthat")[1],
	DeconvoBuddies = citation("DeconvoBuddies")[1],
	DeconvoBuddiespaper = citation("DeconvoBuddies")[2]
	)

and

DeconvoBuddies/vignettes/DeconvoBuddies.Rmd

Lines 379 to 382 in ce1cb4c

	This vignette was generated using `r Biocpkg("BiocStyle")`
	`r Citep(bib[["BiocStyle"]])` with `r CRANpkg("knitr")`
	`r Citep(bib[["knitr"]])` and `r CRANpkg("rmarkdown")`
	`r Citep(bib[["rmarkdown"]])` running behind the scenes.

(only in that vignette) to cite all the other software that you have under

DeconvoBuddies/DESCRIPTION

Lines 22 to 56 in ce1cb4c

	AnnotationHub,
	BiocFileCache,
	dplyr,
	ExperimentHub,
	ggplot2,
	graphics,
	grDevices,
	matrixStats,
	methods,
	purrr,
	rafalib,
	RColorBrewer,
	reshape2,
	S4Vectors,
	scran,
	SingleCellExperiment,
	spatialLIBD,
	stats,
	stringr,
	SummarizedExperiment,
	tibble,
	utils
	Suggests:
	Biobase,
	BiocStyle,
	BisqueRNA,
	covr,
	HDF5Array,
	knitr,
	RefManageR,
	rmarkdown,
	sessioninfo,
	testthat (>= 3.0.0),
	tidyr,
	tidyverse

.

See https://github.com/LieberInstitute/visiumStitched/blob/edda4cb14f9ef1746069b03ea121c5371a3b4755/vignettes/visiumStitched.Rmd#L45-L70 and https://github.com/LieberInstitute/visiumStitched/blob/edda4cb14f9ef1746069b03ea121c5371a3b4755/vignettes/visiumStitched.Rmd#L434-L456 for an example.

Best,
Leo

-- o --

Unrelated to this, shouldn't

DeconvoBuddies/DESCRIPTION

Line 59 in ce1cb4c

R (>= 2.10)

that be like R 4.0? Not 2.10?