GenomeTools genome analysis system.
A genome visualization python package for comparative genomics
Python programs for processing GFF3 files
An efficient way to convert gff3 annotation files into EMBL format ready to submit.
A web application for interactive visualization and exploratory data analysis of variant call matrices
Convert sequence IDs between ucsc/refseq/genbank
A Python package for Biopython that gives feature annotations from GenBank records a new and better life
JSON-based FON (Feature Object Notation) format and tools to simplify genomic annotations usage
cool BED-to-GFF3 converter that runs in parallel
Genome annotation data analysis and management implemented in pure Python
Gff-toolbox is a toolbox of commands that enables one to get the gist of their GFF annotation files, as well as to analyse them in different ways.
The AgBioData GFF3 working group has developed recommendations to solve common problems in the GFF3 format. We suggest improvements for each of the GFF3 fields, as well as the special cases of modeling functional annotations, and standard protein-coding genes. We welcome discussion of these recommendations from the larger community.
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