Skip to main content
Join the official 2019 Python Developers SurveyStart the survey!

Retrieves isolation sources from NCBI given the set of sequences with specified accession numbers. Both nucleotide and protein accessions are accepted.

Project description

**GetIsolationSources** is a small command line utility that, given fasta files containing GenBank IDs in sequence descriptions, generates a per sequence list of isolation sources and their distribution (i.e. number of sequences per isolation source).

It searches for IDs using regular expressions in accordance with [NCBI specifications](, so the format of description strings does not matter.

To obtain needed information it uses automated Entrez queries, so you need a working Internet connection to perform the analysis. Queries are made in accordance with NCBI load-balance regulations, therefore processing several thousand records may take several minutes or even longer.

It is distributed as a source code supporting python setup tools.

**GetIsolationSources uses [BioPython](** So if you're using source code distribution, the latest version of [BioPython]( should be installed.



**GetIsolationSources** by [**Allis Tauri**]( is licensed under the [MIT]( license.

Project details

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Files for GetIsolationSources, version 1.5.2
Filename, size File type Python version Upload date Hashes
Filename, size GetIsolationSources-1.5.2.tar.gz (7.4 kB) File type Source Python version None Upload date Hashes View hashes

Supported by

Elastic Elastic Search Pingdom Pingdom Monitoring Google Google BigQuery Sentry Sentry Error logging AWS AWS Cloud computing DataDog DataDog Monitoring Fastly Fastly CDN SignalFx SignalFx Supporter DigiCert DigiCert EV certificate StatusPage StatusPage Status page