RT Journal Article
SR Electronic
T1 Statistical guidelines for quality control of next-generation sequencing techniques
JF Life Science Alliance
JO Life Sci. Alliance
FD Life Science Alliance LLC
SP e202101113
DO 10.26508/lsa.202101113
VO 4
IS 11
A1 Maximilian Sprang
A1 Matteo Krüger
A1 Miguel A Andrade-Navarro
A1 Jean-Fred Fontaine
YR 2021
UL https://www.life-science-alliance.org/content/4/11/e202101113.abstract
AB More and more next-generation sequencing (NGS) data are made available every day. However, the quality of this data is not always guaranteed. Available quality control tools require profound knowledge to correctly interpret the multiplicity of quality features. Moreover, it is usually difficult to know if quality features are relevant in all experimental conditions. Therefore, the NGS community would highly benefit from condition-specific data-driven guidelines derived from many publicly available experiments, which reflect routinely generated NGS data. In this work, we have characterized well-known quality guidelines and related features in big datasets and concluded that they are too limited for assessing the quality of a given NGS file accurately. Therefore, we present new data-driven guidelines derived from the statistical analysis of many public datasets using quality features calculated by common bioinformatics tools. Thanks to this approach, we confirm the high relevance of genome mapping statistics to assess the quality of the data, and we demonstrate the limited scope of some quality features that are not relevant in all conditions. Our guidelines are available at https://cbdm.uni-mainz.de/ngs-guidelines.