Hi everyone, I am currently working on a R package called BgeeCall allowing to automatically generate present/absent expression calls from any RNA-Seq fastq files as long as the species is present in Bgee (https://bgee.org/) . The package is almost ready and I am currently writing the vignette and some tests.
This package can be seen as a workflow taking as input one transcriptome and at least one fastq file. My question is how can I import these 2 files to run the vignette/tests? They are too big to be part of my package. Can I directly download them from SRA and ensembl (or from my own server)? Do I need to create a dataset that will be loaded by my package for this kind of raw and publicly available data? Do you know if I could reuse some already existing dataset? I am interested to any best practices infomation. Thank you for your answers. Best Regards, Julien _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
