recipe bioconductor-tapseq

Targeted scRNA-seq primer design for TAP-seq

Homepage

https://bioconductor.org/packages/3.12/bioc/html/TAPseq.html

License

MIT + file LICENSE

Recipe

/bioconductor-tapseq/meta.yaml

Design primers for targeted single-cell RNA-seq used by TAP-seq. Create sequence templates for target gene panels and design gene-specific primers using Primer3. Potential off-targets can be estimated with BLAST. Requires working installations of Primer3 and BLASTn.

package bioconductor-tapseq

Versions

1.2.0-0,  1.0.0-0

Depends

• bioconductor-biocgenerics >=0.36.0,<0.37.0

• bioconductor-biocparallel >=1.24.0,<1.25.0

• bioconductor-biostrings >=2.58.0,<2.59.0

• bioconductor-bsgenome >=1.58.0,<1.59.0

• bioconductor-genomeinfodb >=1.26.0,<1.27.0

• bioconductor-genomicalignments >=1.26.0,<1.27.0

• bioconductor-genomicfeatures >=1.42.0,<1.43.0

• bioconductor-genomicranges >=1.42.0,<1.43.0

• bioconductor-iranges >=2.24.0,<2.25.0

• bioconductor-s4vectors >=0.28.0,<0.29.0

• r-base >=4.0,<4.1.0a0

• r-dplyr

• r-tidyr

Required By

Installation

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

conda install bioconductor-tapseq

and update with:

conda update bioconductor-tapseq

or use the docker container:

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

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

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-tapseq/README.html)