Open phiweger opened 7 years ago
spec: https://github.com/The-Sequence-Ontology/Specifications/blob/master/gff3.md
convert: http://pythonhosted.org/mgkit/scripts/filter-gff.html http://pythonhosted.org//mgkit/_modules/mgkit/io/gff.html#Annotation.to_json http://pythonhosted.org//mgkit/_modules/mgkit/io/gff.html#from_gff
less entangled: https://github.com/chapmanb/bcbb/tree/master/gff with tutorial: http://biopython.org/wiki/GFF_Parsing
above recommends using: https://github.com/daler/gffutils // they use sqlite to store data in, not really good, adds too much complexity in our scenario
spec: https://github.com/The-Sequence-Ontology/Specifications/blob/master/gff3.md
convert: http://pythonhosted.org/mgkit/scripts/filter-gff.html http://pythonhosted.org//mgkit/_modules/mgkit/io/gff.html#Annotation.to_json http://pythonhosted.org//mgkit/_modules/mgkit/io/gff.html#from_gff
less entangled: https://github.com/chapmanb/bcbb/tree/master/gff with tutorial: http://biopython.org/wiki/GFF_Parsing
above recommends using: https://github.com/daler/gffutils // they use sqlite to store data in, not really good, adds too much complexity in our scenario