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Table 1 Overview of features of MeFiT compared to other popular tools

From: MeFiT: merging and filtering tool for illumina paired-end reads for 16S rRNA amplicon sequencing

   Merging Quality Filtering
Single Step Tool Merge non-overlapping paired-end reads AvgQ Expected Error
MeFiT CASPER
Qiime v1.9.1 fastq-join/SeqPrep
mothur v1.37 make.contigs
usearch v8.0 fastq_mergepairs