All functions

aggregateFeatures

Aggregate Features

aggregateReplicates

Aggregate Replicates

annotable

Ensembl Annotations

assignAndSaveData

Assign and Save Data

basejump-package

basejump

camel upperCamel

Camel Case

checkInterestingGroups

Check Interesting Groups

collapseToString

Collapse to String

detectHPC

Detect HPC Environment

detectOrganism

Detect Organism

comp revcomp

DNA Sequence Utilites

dots

Extract Dots from Function

dotted

Dotted Case

fixNA

Fix Character Strings Missing NA

gene2symbol

Convert Ensembl Identifier to Gene Symbol

gene2symbolFromGFF gene2symbolFromGTF

Generate gene2symbol from GFF/GTF File

geomean

Geometric Mean

grepString

grep String Generator

kables

Create Tables in LaTeX, HTML, Markdown and reStructuredText

loadData

Load Local Data

loadDataAsName

Load Data File as Name

loadRemoteData

Load Remote Data

fc2lr lr2fc

Interconvert Log Ratio and Fold Change Values

mdHeader

Markdown Header

mdList

Markdown List

multiassignAsNewEnvir

Assign Multiple Objects as a New Environment

prepareSummarizedExperiment

Prepare SummarizedExperiment()

prepareTemplate

Prepare R Markdown Template File

readFileByExtension

Read File by Extension

readGFF readGTF

Read GFF/GTF Annotations

readSampleMetadataFile

Read Sample Metadata File

readYAML

Read YAML File

removeNA

Remove Rows and Columns Containing Only NA Values

saveData

Save Data

snake

Snake Case

sortUnique

Quickly Perform Sort Unique on a Vector

stripTranscriptVersions

Strip Transcript Versions

symbol2gene

Convert Gene Symbol to Ensembl Identifier

toStringUnique

toString Call that Only Outputs Uniques.

transmit

Transmit Files from a Remote FTP Server

tx2gene

Convert Ensembl Transcript to Gene

tx2geneFromGFF tx2geneFromGTF

Generate tx2gene from GFF/GTF File

uniteInterestingGroups

Unite Interesting Groups

writeCounts

Write Counts