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itero: guided contig assembly for target enrichment data

Release v|version|. (:ref:`Changelog`)

Author:Brant C. Faircloth
Date:23 September 2024 20:25 PDT (-0700)
Copyright:This documentation is available under a Creative Commons (`CC-BY`_) license.

itero_ is a "guided-assembly" workflow for target enrichment data that uses bwa_, samtools_, bedtools_, and spades_ to provided high-quality assemblies of raw reads from Illumina_ instruments.

Contributions

itero_ is open-source (see :ref:`License`) and we welcome contributions from anyone who is interested. Please make a pull request on github_. The issue tracker for itero_ is also available on github.

Issues

If you have an issue, please ensure that you are experiencing this issue on a supported OS (see :ref:`Installation`) using the conda_ installation of itero_. If possible, please submit a test case demonstrating the issue and indicate which platform, git checkout, and phyluce version you are using.

Guide

.. toctree::
   :maxdepth: 2
   :caption: Contents:

   purpose
   installation
   running

Project info

.. toctree::
   :maxdepth: 1

   license
   changelog
   funding