LanyingWei/SimFFPE: NGS Read Simulator for FFPE Tissue

The NGS (Next-Generation Sequencing) reads from FFPE (Formalin-Fixed Paraffin-Embedded) samples contain numerous artifact chimeric reads (ACRS), which can lead to false positive structural variant calls. These ACRs are derived from the combination of two single-stranded DNA (ss-DNA) fragments with short reverse complementary regions (SRCRs). This package simulates these artifact chimeric reads as well as normal reads for FFPE samples on the whole genome / several chromosomes / large regions.

Getting started

Package details

Bioconductor views Alignment DataImport MultipleComparison SequenceMatching Sequencing
Package repositoryView on GitHub
Installation Install the latest version of this package by entering the following in R:
LanyingWei/SimFFPE documentation built on Nov. 22, 2020, 3:37 a.m.