-
recipe
bioconductor-hiannotator¶ Functions for annotating GRanges objects
- Homepage
https://bioconductor.org/packages/3.11/bioc/html/hiAnnotator.html
- License
GPL (>= 2)
- Recipe
- Links
biotools: hiannotator, doi: 10.1038/nmeth.3252
hiAnnotator contains set of functions which allow users to annotate a GRanges object with custom set of annotations. The basic philosophy of this package is to take two GRanges objects (query & subject) with common set of seqnames (i.e. chromosomes) and return associated annotation per seqnames and rows from the query matching seqnames and rows from the subject (i.e. genes or cpg islands). The package comes with three types of annotation functions which calculates if a position from query is: within a feature, near a feature, or count features in defined window sizes. Moreover, each function is equipped with parallel backend to utilize the foreach package. In addition, the package is equipped with wrapper functions, which finds appropriate columns needed to make a GRanges object from a common data frame.
-
package
bioconductor-hiannotator¶ 
- Versions
1.22.0-0, 1.20.0-0, 1.18.0-1, 1.16.0-0, 1.14.0-0, 1.11.1-0
- Depends
bioconductor-bsgenome >=1.56.0,<1.57.0
bioconductor-genomicranges >=1.40.0,<1.41.0
bioconductor-rtracklayer >=1.48.0,<1.49.0
r-base >=4.0,<4.1.0a0
- Required By
Installation
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install bioconductor-hiannotator
and update with:
conda update bioconductor-hiannotator
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-hiannotator:<tag>
(see bioconductor-hiannotator/tags for valid values for
<tag>)
Link to this page¶
Render an 
badge with the following MarkDown:
[](http://bioconda.github.io/recipes/bioconductor-hiannotator/README.html)