recipe bioconductor-cellbarcode

Cellular DNA Barcode Analysis toolkit

Homepage:

https://bioconductor.org/packages/3.14/bioc/html/CellBarcode.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-cellbarcode/meta.yaml

This package performs Cellular DNA Barcode (genetic lineage tracing) analysis. The package can handle all kinds of DNA barcodes, as long as the barcode within a single sequencing read and has a pattern which can be matched by a regular expression. This package can handle barcode with flexible length, with or without UMI (unique molecular identifier). This tool also can be used for pre-processing of some amplicon data such as CRISPR gRNA screening, immune repertoire sequencing and meta genome data.

package bioconductor-cellbarcode

Versions:

1.0.0-1,  1.0.0-0

Depends:

• bioconductor-biostrings >=2.62.0,<2.63.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-shortread >=1.52.0,<1.53.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=10.3.0

• liblapack >=3.8.0,<4.0a0

• libstdcxx-ng >=10.3.0

• r-base >=4.1,<4.2.0a0

• r-ckmeans.1d.dp

• r-data.table >=1.12.6

• r-egg

• r-ggplot2

• r-magrittr

• r-plyr

• r-rcpp >=1.0.5

• r-stringr

Required By:

Installation

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

conda install bioconductor-cellbarcode

and update with:

conda update bioconductor-cellbarcode

or use the docker container:

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

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

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Link to this page

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