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BinfTools

Introduction

The purpose of BinfTools is to create a package of user-friendly functions that can aid beginners with bioinformatic analyses of next-generation sequencing. This package makes use of many other available tools to facilitate different analyses and generate figures using a single command. BinfTools will be a growing list of functions for what will hopefully be a variety of NGS analyses. For now, it contains only functions for analyses related to RNA-seq.

For a Quick Start guide, please refer to the README on the BinfTools GitHub page.

I am a usually a little behind on updating the documentation in the Wiki, however the most up-to-date function information can always be found in R help (i.e. ?function())

To learn about how data should be structured for use with BinfTools, click here.

NEW! exploreData() Function

New function (still in development) will take your data and generate a Shiny user interface app to explore your RNA-seq data:

• exploreData()

Functions

• fromLimma()
• fromEdgeR()
• GenerateGSEA()
• MA_Plot()
• volcanoPlot()
• interMA()
• interVP()
• GO_GEM()
• zheat()
• count_plot()
• gsva_plot()
• getSym()
• normToGene()
• barGene()

Functions to compare multiple results

• clusFigs()
• clusGO()
• calcGaps()

If you have any problems, questions, or suggestions on improving/adding to BinfTools, leave a comment in the Issues section of the GitHub