  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.
