README.md

In biobtreeR: Using biobtree tool from R

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/

biobtreeR documentation built on Nov. 8, 2020, 5:19 p.m.