FixSEQ

We show that existing RNA-seq, DNase-seq, and ChIP-seq data exhibit overdispersed
per-base read count distributions that are not matched to existing computational
method assumptions. To compensate for this overdispersion we introduce a
nonparametric and universal method for processing per-base sequencing read count
data called FIXSEQ. We demonstrate that FIXSEQ substantially improves the
performance of existing RNA-seq, DNase-seq, and ChIP-seq analysis tools when
compared with existing alternatives.

Universal count correction for high-throughput sequencing.

FixSEQ is an R tool to correct duplicate counts in NA-seq, DNase-seq, and ChIP-seq high-throughput sequencing data. The FixSEQ algorithm uses a nonparametric and adaptable method for processing per-base sequencing read counts.

FixSEQ

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