All functions

annotable

Ensembl Annotations

assignAndSaveData

Assign and Save Data

multiassignAsNewEnv

Assign Multiple Objects as a New Environment

basejump-package

basejump

collapse

Collapse Utilities

detectHPC

Detect HPC Environment

detectOrganism

Detect Organism

comp revcomp

DNA Sequence Utilites

dots

Extract Dots from Function

fixNA

Fix Character Strings Missing NA

gene2symbol

Convert Ensembl Identifier to Gene Symbol

gene2symbolFromGTF

Generate gene2symbol from GTF File

geomean

Geometric Mean

grepString

grep String Generator

kables

Create Tables in LaTeX, HTML, Markdown and reStructuredText

loadRemoteData

Load Remote Data

fc2lr lr2fc

Interconvert Log Ratio and Fold Change Values

camel dotted snake

Make Syntactically Valid Names

mdHeader

Markdown Header

mdList

Markdown List

pct

Convert Numeric to Percentage

prepareSummarizedExperiment

Prepare SummarizedExperiment

prepareTemplate

Download External Dependency File

readFileByExtension

Read File by Extension

readGTF

Read GTF Annotations

readYAML

Read YAML File

removeNA

Remove Rows and Columns Containing Only NA Values

saveData

Save Data

sortUnique

Quickly Perform Sort Unique on a Vector

symbol2gene

Convert Gene Symbol to Ensembl Identifier

transmit

Transmit Files from a Remote FTP Server

tx2gene

Convert Ensembl Transcript to Gene

tx2geneFromGTF

Generate tx2gene from GTF File

writeCounts

Write Counts