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

摘要: Recent advances in next-generation sequencing have revolutionized genomic research. 16S rRNA amplicon using paired-end on the MiSeq platform from Illumina, Inc., is being used to characterize composition and dynamics of extremely complex/diverse microbial communities. For this analysis Illumina platform, merging quality filtering reads are essential first steps data ensure accuracy reliability downstream analysis. We developed Merging Filtering Tool (MeFiT) combine these pre-processing into one simple, intuitive pipeline. MeFiT invokes CASPER (context-aware scheme for reads) provides users option filter traditional average Q-score metric or a maximum expected error cut-off threshold. an open-source solution that permits merge paired end illumina reads. The tool has been implemented python source-code freely available at https://github.com/nisheth/MeFiT .