Awesome Bioinformatics Pronunciation Guide

This guide aims to provide the correct pronunciation for bioinformatics tools and databases, along with the evidence supporting each pronunciation.

Please note that the pronunciations provided in this repo might not always be definitive. In cases where there is no explicit evidence, the suggested pronunciation might not be accurate. Even pronunciations sourced from official websites may not always reflect the consensus within the broader community. Additionally, some terms may have established pronunciations based on convention rather than formal guidance. It is also possible for certain terms to have multiple accepted pronunciations. Users are encouraged to consider these nuances when referring to the database.

The information in this repository is provided "as is" without warranty of any kind, express or implied. The authors and contributors shall not be liable for any damages arising from the use of this information.

Table of Contents

• Linux Commands
• Tool/Software
• Database
• Others

Linux Commands

Name	Pronunciation (Guide)	Evidence	Remarks
Vim	"One word, like Jim"	Official website
awk	"awk" as in "talk" with a "w"	TODO:
grep
sed
tar
gzip
bzip2
xz
zcat
pigz

Software

Name	Pronunciation (Guide)	Evidence	Remarks
plink		"plink" as in "pink" with a "l"	Official website ”PLINK (one syllable)"
GATK
bwa
bowtie
tophat
cufflinks
STAR
HISAT
DESeq2
edgeR
GSEA
IPA

Format

Name	Pronunciation (Guide)	Evidence	Remarks
VCF	vee-see-eff
SAM
BAM
CRAM
BED
GFF
GTF
FASTA
FASTQ

Database

Name	Pronunciation (Guide)	Evidence	Remarks
dbSNP
gnomAD

Others

Name	Pronunciation (Guide)	Evidence	Remarks
LOEUF	luff	Official website. ”LOEUF is pronounced like its French-inspired name "l'œuf". Another accepted pronunciation is "luff".”

Contributing

Please feel free to contribute to this guide by submitting a pull request.