ARC mininmal Example RNASeq

This is a minimal Example ARC packaging an mRNA-Seq dataset with metadata and computations.

Data origin

• Partly published under: https://doi.org/10.1104/pp.15.01076
• see ./isa.investigation.xlsx for details.

Additional payload

The following folders are not part of the ARC
for details, see: ARC specs:Additional paylod

Notes and ToDos

Experimental metadata in isa.assay.xlsx

• split GEO SWATE templates into four sheets
  • 1SPL01_plants
  • 2EXT01_RNA
  • 3ASY01_RNASeq
  • 4COM01_RNASeq

Adding large raw data via git lfs

1. Before addind the files to the ARC, track them via git lfs

git lfs track "*.fastq.gz"
git lfs track "01_kallisto_index"

2. Move / add the large data files to the respective folders

3. Add them via git add

git add assays/Talinum_RNASeq_minimal/dataset/
git add runs/run1/01_kallisto_index

4. Commit