Download genome files from NCBI by accession.
Project description
A partner script to the popular
ncbi-genome-download
script, ncbi-acc-download allows you to download sequences from
GenBank/RefSeq by accession through
the NCBI ENTREZ
API.
Installation
pip install ncbi-acc-download
Alternatively, clone this repository from GitHub, then run (in a python virtual environment)
pip install .
If this fails on older versions of Python, try updating your pip tool first:
pip install --upgrade pip
and then rerun the ncbi-acc-download install.
ncbi-acc-download is only developed and tested on Python releases
still under active
support by the Python project. At the moment, this means versions 2.7,
3.3, 3.4, 3.5 and 3.6.
Specifically, no attempt at testing under Python versions older than
2.7 or 3.3 is being made.
Usage
To download a record AB_12345 in GenBank format, run
ncbi-acc-download AB_12345
To get an overview of all options, run
ncbi-acc-download --help
License
All code is available under the Apache License version 2, see the
`LICENSE <LICENSE>`__ file for details.
Project details
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