- FASTQ: <sample_name>_<flowcell_ID>_<index_lane>_<readNum>_fastq.gz
- BAM and BAI: <sample_name>_<mapping_tool>_<ref_genome_build>.bam
- GFF3: <species>[.cultivar].<assembly_build>.<sequence_type>.<id_type>.<id>.<purpose>.gff3.gz
- AGP: <species>[.cultivar].<assembly_build>.<sequence_type>.<id_type>.<id>.<purpose>.agp.gz
Functional Annotation
Release Workflow
- save data in /output
- check naming conventions
- release
- add to the data registry
- add to Ensembl
- copy datafiles to/output
- generate webapollo instance
- Check/test by gate keeper
- announce the release
\cite{embl-ebi}\cite{information}\cite{annotation}\cite{standards}\cite{pipeline}