recipe bioconductor-pqsfinder

Identification of potential quadruplex forming sequences

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/pqsfinder.html

License:

BSD_2_clause + file LICENSE

Recipe:

/bioconductor-pqsfinder/meta.yaml

Links:

biotools: pqsfinder, doi: 10.1093/bioinformatics/btv272

Pqsfinder detects DNA and RNA sequence patterns that are likely to fold into an intramolecular G-quadruplex (G4). Unlike many other approaches, pqsfinder is able to detect G4s folded from imperfect G-runs containing bulges or mismatches or G4s having long loops. Pqsfinder also assigns an integer score to each hit that was fitted on G4 sequencing data and corresponds to expected stability of the folded G4.

package bioconductor-pqsfinder

Versions:

2.14.0-0,  2.10.1-1,  2.10.1-0,  2.10.0-0,  2.8.0-0,  2.6.0-1,  2.6.0-0,  2.4.0-0,  2.2.0-0, 

2.14.0-0,  2.10.1-1,  2.10.1-0,  2.10.0-0,  2.8.0-0,  2.6.0-1,  2.6.0-0,  2.4.0-0,  2.2.0-0,  2.0.1-0,  1.10.0-0,  1.8.0-0,  1.6.3-0

Depends:

• bioconductor-biostrings >=2.66.0,<2.67.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• 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 >=1.78.0

• r-rcpp >=0.12.3

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-pqsfinder

and update with:

conda update bioconductor-pqsfinder

or use the docker container:

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

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

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