- recipe bioconductor-filterffpe
FFPE Artificial Chimeric Read Filter for NGS data
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/FilterFFPE.html
- License:
LGPL-3
- Recipe:
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.
- package bioconductor-filterffpe¶
-
- Versions:
1.8.0-0
,1.4.0-0
,1.2.0-0
,1.0.0-2
,1.0.0-1
- Depends:
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-iranges
>=2.32.0,<2.33.0
bioconductor-rsamtools
>=2.14.0,<2.15.0
bioconductor-s4vectors
>=0.36.0,<0.37.0
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-filterffpe
and update with:
conda update bioconductor-filterffpe
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-filterffpe:<tag>
(see bioconductor-filterffpe/tags for valid values for
<tag>
)
Download stats¶
Link to this page¶
Render an badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-filterffpe/README.html)