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  RLM: Fast and simplified extraction of Read-Level Methylation metrics from bisulfite sequencing data

Hetzel, S., Gießelmann, P., Reinert, K., Meissner, A., & Kretzmer, H. (2021). RLM: Fast and simplified extraction of Read-Level Methylation metrics from bisulfite sequencing data. Bioinformatics, 37(21), 3934-3935. doi:10.1093/bioinformatics/btab663.

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 Creators:
Hetzel, Sara1, Author           
Gießelmann, Pay1, Author           
Reinert, Knut2, Author           
Meissner, Alexander1, Author           
Kretzmer, Helene1, Author           
Affiliations:
1Dept. of Genome Regulation (Head: Alexander Meissner), Max Planck Institute for Molecular Genetics, Max Planck Society, ou_2379694              
2Efficient Algorithms for Omics Data (Knut Reinert), Max Planck Fellow Group, Max Planck Institute for Molecular Genetics, Max Planck Society, ou_2385698              

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 Abstract: Bisulfite sequencing data provide value beyond the straightforward methylation assessment by analyzing single-read patterns. Over the past years, various metrics have been established to explore this layer of information. However, limited compatibility with alignment tools, reference genomes or the measurements they provide present a bottleneck for most groups to routinely perform read-level analysis. To address this, we developed RLM, a fast and scalable tool for the computation of several frequently used read-level methylation statistics. RLM supports standard alignment tools, works independently of the reference genome and handles most sequencing experiment designs. RLM can process large input files with a billion reads in just a few hours on common workstations.

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Language(s): eng - English
 Dates: 2021-10-022021-11-01
 Publication Status: Published in print
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 Identifiers: DOI: 10.1093/bioinformatics/btab663
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Title: Bioinformatics
Source Genre: Journal
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Publ. Info: Oxford : Oxford University Press
Pages: - Volume / Issue: 37 (21) Sequence Number: - Start / End Page: 3934 - 3935 Identifier: ISSN: 1367-4803
CoNE: https://pure.mpg.de/cone/journals/resource/954926969991