- recipe bioconductor-vdjdive
Analysis Tools for 10X V(D)J Data
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/VDJdive.html
- License:
Artistic-2.0
- Recipe:
This package provides functions for handling and analyzing immune receptor repertoire data, such as produced by the CellRanger V(D)J pipeline. This includes reading the data into R, merging it with paired single-cell data, quantifying clonotype abundances, calculating diversity metrics, and producing common plots. It implements the E-M Algorithm for clonotype assignment, along with other methods, which makes use of ambiguous cells for improved quantification.
- package bioconductor-vdjdive¶
-
- Versions:
1.0.0-0
- Depends:
bioconductor-basilisk
>=1.9.0,<1.10.0
bioconductor-biocparallel
>=1.32.0,<1.33.0
bioconductor-iranges
>=2.32.0,<2.33.0
bioconductor-s4vectors
>=0.36.0,<0.37.0
bioconductor-singlecellexperiment
>=1.20.0,<1.21.0
bioconductor-summarizedexperiment
>=1.28.0,<1.29.0
r-base
>=4.2,<4.3.0a0
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-vdjdive
and update with:
conda update bioconductor-vdjdive
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-vdjdive:<tag>
(see bioconductor-vdjdive/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-vdjdive/README.html)