ncbitaxonomy

This is a Rust crate (i.e. library) for working with a local copy of the NCBI Taxonomy database. The database can be downloaded (either taxdump.zip or taxdump.tar.gz) from the NCBI Taxonomy FTP site.

Documentation for version 0.1.0 is available at crates.io.

taxonomyfilterrefseq

(new in 0.1.1)

A tool to filter a NCBI RefSeq FASTA file so that only the ancestors of a given taxon are retained.

```bash $ taxonomyfilterrefseq error: The following required arguments were not provided:

USAGE: taxonomyfilterrefseq [OPTIONS] [OUTPUT_FASTA]

```

TODO

• Clean up non-idiomatic code (e.g. the use of the insertnewentry bool)
• Add testing via CI
• Refactor taxonomyfilterrefseq: move most code to library, add tests