What you will learn
Next-generation sequencing experiments produce millions of short reads per sample and the processing of those raw reads and their conversion into other file formats lead to additional information on the obtained data. Various file formats are in use in order to store and manipulate this information. This chapter presents an overview of the file formats FASTQ, FASTA, SAM/BAM, GFF/GTF, BED, and VCF that are commonly used in analysis of next-generation sequencing data. Moreover, the structure and function of the different file formats are reviewed. This chapter explains how different file formats can be interpreted and what information can be gained from their analysis.
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Acknowledgements
We thank Patricia Basurto and Carolina Castañeda of the International Laboratory for Human Genome Research (National Autonomous University of Mexico, Juriquilla campus) for reviewing this chapter.
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Kappelmann-Fenzl, M. (2021). NGS Data. In: Kappelmann-Fenzl, M. (eds) Next Generation Sequencing and Data Analysis. Learning Materials in Biosciences. Springer, Cham. https://doi.org/10.1007/978-3-030-62490-3_7
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DOI: https://doi.org/10.1007/978-3-030-62490-3_7
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