- recipe bioconductor-mitoclone2
Clonal Population Identification in Single-Cell RNA-Seq Data using Mitochondrial and Somatic Mutations
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/mitoClone2.html
- License:
GPL-3
- Recipe:
This package primarily identifies variants in mitochondrial genomes from BAM alignment files. It filters these variants to remove RNA editing events then estimates their evolutionary relationship (i.e. their phylogenetic tree) and groups single cells into clones. It also visualizes the mutations and providing additional genomic context.
- package bioconductor-mitoclone2¶
-
- Versions:
1.4.0-0
,1.0.0-2
,1.0.0-1
,1.0.0-0
- Depends:
bioconductor-deepsnv
>=1.44.0,<1.45.0
bioconductor-genomicranges
>=1.50.0,<1.51.0
bioconductor-rhtslib
>=2.0.0,<2.1.0
bioconductor-s4vectors
>=0.36.0,<0.37.0
libblas
>=3.9.0,<4.0a0
libgcc-ng
>=12
liblapack
>=3.9.0,<4.0a0
libstdcxx-ng
>=12
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-mitoclone2
and update with:
conda update bioconductor-mitoclone2
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-mitoclone2:<tag>
(see bioconductor-mitoclone2/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-mitoclone2/README.html)