Metadata-Version: 2.1
Name: AmpliGone
Version: 1.0.1
Summary: Ampligone is a tool which accurately removes primer sequences from FastQ NGS reads in an amplicon sequencing experiment
Home-page: https://rivm-bioinformatics.github.io/AmpliGone/
Author: Florian Zwagemaker
Author-email: ids-bioinformatics@rivm.nl
License: AGPLv3
Project-URL: Source Code, https://github.com/RIVM-bioinformatics/AmpliGone
Platform: UNKNOWN
Classifier: Development Status :: 5 - Production/Stable
Classifier: Programming Language :: Python :: 3.8
Classifier: License :: OSI Approved :: GNU Affero General Public License v3
Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
Classifier: Intended Audience :: Science/Research
Requires-Python: >=3.8
Description-Content-Type: text/markdown
License-File: LICENSE

# AmpliGone

AmpliGone is a tool which accurately finds and removes primer sequences from NGS reads in an amplicon experiment.

In contrast to a lot of other primer-removal tools, AmpliGone does not actively look for primer sequences within the NGS reads. Instead, reads are trimmed based on primer sequence coordinates in relation to a given reference sequence.
Additionally, AmpliGone is able to compensate for, and therefore properly clean, reads that start or end outside of a primer-region as this is a common occurrence in amplicon-based sequencing data.

AmpliGone is build and tested with Nanopore and Illumina data (fastq) in mind and supports both 'end-to-end' as well as 'end-to-mid' amplicons to be cleaned.  
Please see [this page](https://rivm-bioinformatics.github.io/AmpliGone/latest/amplicon-types/) to learn more about this terminology.

Please see the [documentation](https://rivm-bioinformatics.github.io/AmpliGone/) for more information as well as [installation instructions](https://rivm-bioinformatics.github.io/AmpliGone/latest/installation/) and [usage instructions](https://rivm-bioinformatics.github.io/AmpliGone/latest/user-guide/).

AmpliGone is available under the [AGPLv3 license](https://www.gnu.org/licenses/agpl-3.0.en.html).

