Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads

BMC Bioinformatics

Table 1 Main features of various adapter trimmers

For each method, the table shows if it is able to: i) identify adapters in the 5’ end of reads, ii) identify adapters in the 3’ end of reads, iii) process single-end (SE) reads, iv) process paired-end (PE) reads, v) process Nextera long mate-pair (LMP) reads, vi) search for multiple different adapters (Multi), vii) trim subsequences of multiple degenerative characters (Ns), viii) trim low-quality nucleotides (Q), ix) separate multiplexed reads based on barcodes, x) merge overlapped pairs into longer single-end reads, xi) process gzip files directly, and xii) run with multiple threads simultaneously (MT). (○: Yes; ×: No).

ISSN: 1471-2105