This is the development version of FilterFFPE; for the stable release version, see FilterFFPE.
FFPE Artificial Chimeric Read Filter for NGS dataBioconductor version: Development (3.22)
This package finds and filters artificial chimeric reads specifically generated in next-generation sequencing (NGS) process of formalin-fixed paraffin-embedded (FFPE) tissues. These artificial chimeric reads can lead to a large number of false positive structural variation (SV) calls. The required input is an indexed BAM file of a FFPE sample.
Author: Lanying Wei [aut, cre] ORCID: 0000-0002-4281-8017
Maintainer: Lanying Wei <lanying.wei at uni-muenster.de>
Citation (from within R, entercitation("FilterFFPE")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("FilterFFPE")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("FilterFFPE")Follow Installation instructions to use this package in your R session.
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