ANGSD: Analysis of Next Generation Sequencing Data
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Updated: Apr 20, 2026

Targeted DNA Methylation Analysis by Next-generation Sequencing
Published on: February 24, 2015
Thorfinn Sand Korneliussen1, Anders Albrechtsen2, Rasmus Nielsen3,4
1Centre for GeoGenetics, Natural History Museum of Denmark, Copenhagen, Denmark. thorfinn@binf.ku.dk.
Background:
High-throughput DNA sequencing technologies are generating vast amounts of data. Fast, flexible and memory efficient implementations are needed in order to facilitate analyses of thousands of samples simultaneously.
Results:
We present a multithreaded program suite called ANGSD. This program can calculate various summary statistics, and perform association mapping and population genetic analyses utilizing the full information in next generation sequencing data by working directly on the raw sequencing data or by using genotype likelihoods.
Conclusions:
The open source c/c++ program ANGSD is available at http://www.popgen.dk/angsd . The program is tested and validated on GNU/Linux systems. The program facilitates multiple input formats including BAM and imputed beagle genotype probability files. The program allow the user to choose between combinations of existing methods and can perform analysis that is not implemented elsewhere.
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