- recipe bioconductor-contibait
Improves Early Build Genome Assemblies using Strand-Seq Data
- Homepage:
https://bioconductor.org/packages/3.16/bioc/html/contiBAIT.html
- License:
BSD_2_clause + file LICENSE
- Recipe:
- Links:
biotools: contibait, doi: 10.1093/bioinformatics/btx281
Using strand inheritance data from multiple single cells from the organism whose genome is to be assembled, contiBAIT can cluster unbridged contigs together into putative chromosomes, and order the contigs within those chromosomes.
- package bioconductor-contibait¶
-
- Versions:
1.26.0-1
,1.26.0-0
,1.22.0-2
,1.22.0-1
,1.22.0-0
,1.20.0-0
,1.18.0-1
,1.18.0-0
,1.15.0-0
,1.26.0-1
,1.26.0-0
,1.22.0-2
,1.22.0-1
,1.22.0-0
,1.20.0-0
,1.18.0-1
,1.18.0-0
,1.15.0-0
,1.14.0-0
,1.12.0-1
,1.10.0-0
,1.8.0-0
,1.6.0-0
- Depends:
bioconductor-biocgenerics
>=0.44.0,<0.45.0
bioconductor-biocparallel
>=1.32.0,<1.33.0
bioconductor-dnacopy
>=1.72.0,<1.73.0
bioconductor-exomecopy
>=1.44.0,<1.45.0
bioconductor-genomicalignments
>=1.34.0,<1.35.0
bioconductor-genomicfiles
>=1.34.0,<1.35.0
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-rtracklayer
>=1.58.0,<1.59.0
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
r-bh
>=1.51.0.3
- Required By:
Installation
With an activated Bioconda channel (see set-up-channels), install with:
conda install bioconductor-contibait
and update with:
conda update bioconductor-contibait
or use the docker container:
docker pull quay.io/biocontainers/bioconductor-contibait:<tag>
(see bioconductor-contibait/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-contibait/README.html)