# MicroHapDB

**MicroHapDB** is a comprehensive catalog of human microhaplotype variation.
The database integrates marker and population frequency data from numerous published research articles—see [citations](citations.md).
Allele frequency estimates and allelic diversity statistics ($A_e$) are computed for 26 global populations so that markers can be ranked and evaluated for various applications.

MicroHapDB is designed to be user-friendly for researchers, technology developers, and forensic practitioners, supporting a range of access methods from browsing and simple text queries to complex queries and full programmatic access via a Python API.
It is designed as a community resource requiring minimal infrastructure to use and maintain: the entire contents of the database are distributed in plain text with each copy of MicroHapDB.


## Table of Contents

```{toctree}
:maxdepth: 2

starting
install
ranking
targets
extending
citations
```

If you use this database, please cite our work.

- Standage DS,  Mitchell RN (2020) MicroHapDB: A Portable and Extensible Database of All Published Microhaplotype Marker and Frequency Data. *Frontiers in Genetics* 11:781, [doi:10.3389/fgene.2020.00781](https://doi.org/10.3389/fgene.2020.00781).

MicroHapDB was created and is maintained by the Bioinformatics Group at the National Bioforensic Anaylsis Center (NBFAC).
Contact: daniel.standage@st.dhs.gov.


## Reference: command line interface

```{toctree}
:maxdepth: 1

cli-population
cli-marker
cli-frequency
cli-lookup
```


## Indices and tables

- {ref}`genindex`
- {ref}`modindex`
- {ref}`search`