# libprosic

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A Rust library for calling genomic variants using a latent variable model. This library is under active development. A preprint describing an early version of the model can be found here: https://doi.org/10.1101/121954.

## Authors

### Model

* [Johannes Köster](https://github.com/johanneskoester) (sampling probability, indel allele probabilities, FDR control, prior probabilities)
* [Louis Dijkstra](https://github.com/louisdijkstra) (latent variable model)
* [David Lähnemann](https://github.com/dlaehnemann) (single cell whole genome amplification model, single cell & bulk joint calling model / event setup)
* [Alexander Schönhuth](https://github.com/aschoen) (latent variable model, single cell whole genome amplification model, single cell & bulk joint calling model / event setup)

### Implementation

* [Johannes Köster](https://github.com/johanneskoester) (framework, software architecture, model, tumor-normal variant calling)
* [David Lähnemann](https://github.com/dlaehnemann) (single cell variant calling, FDR on Event sets) with strong support from Johannes Köster

### Supervision

* Supervision of David Lähnemann: [Alice McHardy](https://github.com/alicemchardy) and [Alexander Schönhuth](https://github.com/aschoen)

### Affiliations

Affiliations during work on the project:

* [Life Sciences and Health group](https://www.cwi.nl/research/groups/life-sciences-and-health), Centrum Wiskunde & Informatica, Amsterdam, The Netherlands: Louis Dijkstra, Johannes Köster, Alexander Schönhuth
* [Computational Biology of Infection Research Group](https://www.helmholtz-hzi.de/en/research/research_topics/bacterial_and_viral_pathogens/computational_biology_of_infection_research/our_research/), Helmholtz Centre for Infection Research, Braunschweig, Germany: David Lähnemann, Alice McHardy
* [Algorithms for reproducible bioinformatics lab](https://koesterlab.github.io/), Institute of Human Genetics, University Hospital Essen, University of Duisburg-Essen, Germany: Johannes Köster
* [Department of Pediatric Oncology, Hematology, and Clinical Immunology](https://www.uniklinik-duesseldorf.de/en/unternehmen/kliniken/department-of-paediatric-oncology-haematology-and-immunology/), University Children’s Hospital, Medical Faculty, Heinrich Heine University, Düsseldorf, Germany: David Lähnemann