5/1/2023 0 Comments Enzymex adapter sequenceOne of the problems encountered in many experiments - especially as read lengths keep expanding - is the sequencing of adapter fragments. Consequently many groups have to deal with the same type of problems which leads to the in–house development of tools that already exist. Moreover, as sequencing costs continue to drop, more and more groups can afford next-generation sequencing which further increases the need for efficient and accurate pre-processing of sequencing data. With the growing use of next-generation sequencing techniques in research groups all around the world there is also a growing need for tools that can help in the downstream analyses of the vast amounts of sequencing data produced. AdapterRemoval has already been used in various large projects and it is possible to extend it further to accommodate application-specific biases in the data. It exhibits good performance both in terms of sensitivity and specificity. ConclusionsĪdapterRemoval is a comprehensive tool for analyzing next-generation sequencing data. AdapterRemoval is shown to be good at trimming adapters from both single-end and paired-end data. This is a flexible tool that can be tuned to accommodate different experimental settings and sequencing platforms producing FASTQ files. Furthermore, it can look for adapter sequence in both the 5’ and 3’ ends of the reads. The program locates and removes adapter residues from the reads, it is able to combine paired reads if they overlap, and it can optionally trim low-quality nucleotides. We present a tool called AdapterRemoval which is able to pre-process both single and paired-end data. These adapter sequences have to be removed as they can hinder correct mapping of the reads and influence SNP calling and other downstream analyses. the partial or complete sequencing of adapter sequences. One recurring problem is adapter contamination in the reads, i.e. With the advent of next-generation sequencing there is an increased demand for tools to pre-process and handle the vast amounts of data generated.
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