genus_species[_cultivar]/genus_species_version.fsa
Bacteria:
Fungi:
Metagenomes:

Data Files

Naming conventions file names
Naming convention for entities
Patch files, patch scripts 
BSGenome packages

Validators

Include a link to the validator for each format.

Genome Assembly

Naming Convention for Entities

Entities:
- Contig
- Scaffold
- superscaffolds/chromosome
- genes

Naming Convention for File Names

- fasta
- fastq
- alignment
- Feature Format File
- agp coordinate systems

Functional Annotation

Release Workflow

- save data in /output
- check naming conventions
- release
  - add to the data registry
  - add to ensembl
  - data files on /output
  - webapollo instance   
- announce the release
\cite{embl-ebi}\cite{information}\cite{annotation}\cite{standards}\cite{pipeline}