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alignparse is a Python package written by the Bloom lab <https://research.fhcrc.org/bloom/en.html>_.
It is designed to align long sequencing reads (such as those from PacBio circular consensus sequencing) to targets, filter these alignments based on user-provided specifications, and parse out user-defined sequence features.
For each read that passes the filters, information about the features (e.g. accuracy, sequence, mutations) is retained for further analyses.
See the alignparse documentation <https://jbloomlab.github.io/alignparse>_ for details on how to install and use alignparse.
Please cite alignparse <https://jbloomlab.github.io/alignparse/acknowledgements.html>_ if you use it in your work.
The source code is on GitHub <https://github.com/jbloomlab/alignparse>_.
To contribute to this package, read the instructions in CONTRIBUTING.rst <CONTRIBUTING.rst>_.
To report issues or seek support, please use the GitHub issue tracker <https://github.com/jbloomlab/alignparse/issues>_.
FAQs
Align sequences and then parse features.
We found that alignparse demonstrated a healthy version release cadence and project activity because the last version was released less than a year ago. It has 1 open source maintainer collaborating on the project.
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