Parse genomes in GenBank/GFF3 formats to JSON
Project description
genome2json
Parse genomes in GenBank/GFF3 format to JSON
Implemented in pure Python using builtin libraries.
usage: Genome2JSON [-h] (-gbk GENBANK | -gff GENERAL) [-fa FASTA] -o OUTPUT
[--json_indent JSON_INDENT] [--grouped]
Parse genomes in GenBank/GFF3 format, and convert to JSON
optional arguments:
-h, --help show this help message and exit
-gbk GENBANK, --genbank GENBANK
GenBank file
-gff GENERAL, --general GENERAL
GFF3 file
-fa FASTA, --fasta FASTA
FASTA file, required when parsing GFF
-o OUTPUT, --output OUTPUT
Save JSON to file
--json_indent JSON_INDENT
Number of spaces to indent in JSON
--grouped Group overlapping sequence features
Cameron Gilchrist 2020
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