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Table 1 Comparison of sequencing quality control software tools

From: HTQC: a fast quality control toolkit for Illumina sequencing data

Name Programming language Sequencing platforms Reads filtration methods
HTQC C++ Illumina Tail trimming, filter by quality/length/tile
FastQC Java Not limited, any FASTQ file No
NGS QC Perl Illumina, 454 Trimming only
SolexaQA Perl Illumina Trimming only
BIGpre Perl Illumina, 454 Duplicate removal
PIQA R, C++ Illumina No