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+Qiita (canonically pronounced *cheetah*)
+========================================
+
+|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>`__.
+
+Current features
+----------------
+
+* Full study management: Create, delete, update samples in the sample and
+  multiple preparation information files.
+* Upload files via direct drag & drop from the web interface or via scp
+  from any server that allows these connections.
+* Study privacy management: Sandboxed -> Private -> Public.
+* Easy long-term sequence data deposition to the European Nucleotide Archive (ENA),
+  part of the European Bioinformatics Institute (EBI) for private and public
+  studies.
+* Raw data processing for `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.
+* Basic downstream analyses using QIIME 2. Note that Qiita produces qza/qzv in the analytical steps but you can also convert `non QIIME 2 artifacts <https://qiita.ucsd.edu/static/doc/html/faq.html#how-to-convert-qiita-files-to-qiime2-artifacts>`__.
+* Bulk download of `studies and artifacts <https://qiita.ucsd.edu/static/doc/html/downloading.html>`__.
+* Basic study search in the study listing page.
+* Complex metadata search via redbiom.
+
+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>`__.
+
+Accepted raw files
+------------------
+
+* Multiplexed SFF
+* Multiplexed FASTQ: forward, reverse (optional), and barcodes
+* Per sample FASTQ: forward and reverse (optional)
+* Multiplexed FASTA/qual files
+* Per sample FASTA, only for "Full Length Operon"
+
+
+.. |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