2015/12/10 by Vishal N. Koparde, Hardik I. Parikh, Koparde, Vishal N. +5
Biochemistry, Genetics and Molecular Biology · #FOS: Biological sciences #Genomics (q-bio.GN) #q-bio.GN
paper · pdf · doi:10.48550/arxiv.1512.03344
arxiv created 2015/12/10 · arxiv updated 2015/12/11
Next generation sequencing technology rapidly produces massive volume of data and quality control of this sequencing data is essential to any genomic analysis. Here we present MEEPTOOLS, which is a collection of open-source tools based on maximum expected error as a percentage of read length (MEEP score) to filter, trim, truncate and assess next generation DNA sequencing data in FASTQ file format. MEEPTOOLS provides a non-traditional approach towards read filtering/trimming based on maximum error probabilities of the bases in the read on a non-logarithmic scale. This method simultaneously retains more reliable bases and removes more unreliable bases than the traditional quality filtering strategies.