Citation information for panc8 data

cohenp05 commented 3 years ago

Hello,

I'm looking for citation information for the panc8 dataset. When I use either the help command ?panc8 or the citation function citation('panc8.SeuratData') only five links are provided for the 8 dataset sources.

Screen Shot 2021-09-01 at 10 22 07 AM

Further 2 of those links point the GEO Accession Viewer home page and not to any specific dataset, and 2 of them point to the same dataset.

Thank you for your help,

Phil

andrewwbutler commented 2 years ago

Hi Phil,

The correct links should be:

celseq - http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE81076 celseq2 - http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE85241 fluidigmc1 - http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE86469 smartseq2 - https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-5061/ indrops - http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE84133

@mojaveazure , the links in the example section look fine but would be good to update the source details at some point when you have a chance.

jan-glx commented 2 years ago

Similarly, the citation information for hcabm40k should point to the HCA data set in question by URL or ID and if not giving a more precise author than "Satija Lab" at least have it as "family name" (and to split across also given name).

citation("hcabm40k.SeuratData")

To cite package ‘hcabm40k.SeuratData’ in publications use:

  Satija Lab (2019). hcabm40k.SeuratData: 40,000 Cells From the Human Cell Atlas ICA Bone Marrow Dataset. R package version 3.0.0.

A BibTeX entry for LaTeX users is

  @Manual{,
    title = {hcabm40k.SeuratData: 40,000 Cells From the Human Cell Atlas ICA Bone Marrow Dataset},
    author = {Satija Lab},
    year = {2019},
    note = {R package version 3.0.0},
  }

Warning message:
In citation("hcabm40k.SeuratData") :
  no date field in DESCRIPTION file of package ‘hcabm40k.SeuratData’

satijalab / seurat-data

Citation information for panc8 data #40