|Build Status| |Coverage Status|
Advances in sequencing, proteomics, transcriptomics, metabolomics, and others are giving us new insights into the microbial world and dramatically improving our ability to understand their community composition and function at high resolution. These new technologies are generating vast amounts of data, even from a single study or sample, leading to challenges in storage, representation, analysis, and integration of the disparate data types. Qiita was designed to allow users address these new challenges by keeping track of multiple studies with multiple 'omics data. Additionally, Qiita is capable of supporting multiple analytical pipelines through a 3rd-party plugin system, allowing the user to have a single entry point for all their analyses. Qiita's main site provides database and compute resources to the global community, alleviating the technical burdens, such as familiarity with the command line or access to compute power, that are typically limiting for researchers studying microbial ecology.
Qiita is currently in production/stable status. We are very open to community
contributions and feedback. If you're interested in contributing to Qiita,
see CONTRIBUTING.md <https://github.com/qiita-spots/qiita/blob/master/CONTRIBUTING.md>
.
If you'd like to report bugs or request features, you can do that in the
Qiita issue tracker <https://github.com/qiita-spots/qiita/issues>
.
To install and configure your own Qiita server, see
INSTALL.md <https://github.com/qiita-spots/qiita/blob/master/INSTALL.md>
. However, Qiita is not designed to be used locally but rather on a server, we therefore advise against installing your own version on a personal computer. Nevertheless, it can run just fine on a laptop or small computer for development and educational purposes. For example, for every single PR and release, we install Qiita from scratch as GitHub Actions, you can follow these steps <https://github.com/qiita-spots/qiita/actions>
.
For more specific details about Qiita's philosophy and design visit the Qiita main site tutorial <https://qiita.microbio.me/static/doc/html/qiita-philosophy/index.html>
__.
Target Gene, Metagenomic, Metabolomic, Genome Isolates and BIOM files <https://qiita.ucsd.edu/static/doc/html/processingdata/index.html#processing-recommendations>
__. NOTE: BIOM files can be added as new preparation files for downstream analyses; however, this cannot be made public in the system.non QIIME 2 artifacts <https://qiita.ucsd.edu/static/doc/html/faq.html#how-to-convert-qiita-files-to-qiime2-artifacts>
__.studies and artifacts <https://qiita.ucsd.edu/static/doc/html/downloading.html>
__.For more detailed information visit the Qiita tutorial <https://cmi-workshop.readthedocs.io/en/latest/>
and the Qiita help <https://qiita.ucsd.edu/static/doc/html/index.html>
.
.. |Build Status| image:: https://github.com/qiita-spots/qiita/actions/workflows/qiita-ci.yml/badge.svg :target: https://github.com/qiita-spots/qiita/actions/workflows/qiita-ci.yml .. |Coverage Status| image:: https://coveralls.io/repos/github/qiita-spots/qiita/badge.svg?branch=dev :target: https://coveralls.io/github/qiita-spots/qiita?branch=master