recipe bioconductor-simffpe

NGS Read Simulator for FFPE Tissue

Homepage

https://bioconductor.org/packages/3.14/bioc/html/SimFFPE.html

License

LGPL-3

Recipe

/bioconductor-simffpe/meta.yaml

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.

package bioconductor-simffpe

(downloads) docker_bioconductor-simffpe

Versions

1.6.0-01.4.0-01.2.0-11.2.0-01.0.0-0

Depends
Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-simffpe

and update with:

conda update bioconductor-simffpe

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-simffpe:<tag>

(see bioconductor-simffpe/tags for valid values for <tag>)

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