GitHub - tamerh/biobtreeR: Bioconductor R package for biobtree (original) (raw)

biobtreeR

Bioconductor R package for genomic research via biobtree. It aims to provide an alternative to existing packages with abilty process large and diverse datasets effectievly and allows executing basic or advanced queries .

For more detail and documentation check the Bioconductor page

Install

if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager")

BiocManager::install("biobtreeR")

Usage

library(biobtreeR)

directory for the tool files

bbUseOutDir("specify your directory")

default database for most studied dataset and organism genomes

once it is retrieved it is saved to your directory for later reuse

check document for included dataset or other builtin databases or build custom data

bbBuiltInDB()

starts server for executing queries inside R pipelines and provide web ui for expolaration with examples

web interface address http://localhost:8888/ui/

bbStart()

Demo

Demo of web interface which covers all the datasets with examples

https://www.ebi.ac.uk/~tgur/biobtree/