Format

Send to

Choose Destination
Genome Biol. 2016 Mar 31;17:60. doi: 10.1186/s13059-016-0918-z.

EAGER: efficient ancient genome reconstruction.

Author information

1
Center for Bioinformatics (ZBIT), Integrative Transcriptomics, Eberhard-Karls-Universität, Sand 14, Tübingen, 72076, Germany. alexander.peltzer@uni-tuebingen.de.
2
Institute for Archaeological Sciences, Archaeo- & Palaeogenetics, Rümelinstraße 23, Tübingen, 72074, Germany. alexander.peltzer@uni-tuebingen.de.
3
Max Planck Institute for the Science of the Human History, Kahlaische Straße 10, Jena, 07745, Germany. alexander.peltzer@uni-tuebingen.de.
4
Center for Bioinformatics (ZBIT), Integrative Transcriptomics, Eberhard-Karls-Universität, Sand 14, Tübingen, 72076, Germany.
5
Institute for Archaeological Sciences, Archaeo- & Palaeogenetics, Rümelinstraße 23, Tübingen, 72074, Germany.
6
Max Planck Institute for the Science of the Human History, Kahlaische Straße 10, Jena, 07745, Germany.
7
QNIB Inc, Ortfeld 1, Böddenstedt, 29556, Germany.
8
Senckenberg Center for Human Evolution and Palaeoenvironment, Rümelinstraße 23, Tübingen, 72074, Germany.

Abstract

BACKGROUND:

The automated reconstruction of genome sequences in ancient genome analysis is a multifaceted process.

RESULTS:

Here we introduce EAGER, a time-efficient pipeline, which greatly simplifies the analysis of large-scale genomic data sets. EAGER provides features to preprocess, map, authenticate, and assess the quality of ancient DNA samples. Additionally, EAGER comprises tools to genotype samples to discover, filter, and analyze variants.

CONCLUSIONS:

EAGER encompasses both state-of-the-art tools for each step as well as new complementary tools tailored for ancient DNA data within a single integrated solution in an easily accessible format.

KEYWORDS:

Authentication; Bioinformatics; Genome reconstruction; aDNA; aDNA analysis

PMID:
27036623
PMCID:
PMC4815194
DOI:
10.1186/s13059-016-0918-z
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for BioMed Central Icon for PubMed Central
Loading ...
Support Center