gbkit

A tool for Genbank file manipulation/statistics.

Inspired heavily by the excellent SeqKit.

This doesn't exist yet

I'm doing documentation-driven development, so for now none of this exists.

Installation

With Cargo 1.65+:

cargo install gbkit

Download pre-compiled binaries for Linux, Mac and Windows here.

Build from source:

git clone https://github.com/jimrybarski/gbkit && \
    pushd gbkit && \ 
    cargo build --release && \
    popd

Commands

fasta converts features to FASTA format. stats shows summary statistics of the size and count of features/loci. filter filters by size/contents/IDs. range creates a new Genbank with features between the given range. grep searches for sequences/IDs. rmdup removes duplicates by sequence/ID. head selects the first N records. sort sorts records by ID. shuffle put the records in random order. flip reverses the orientation of the locus and features.