STAR(1)

✨ STAR(1) — User Commands ✨

Bestie, okay so let's talk about STAR, the ultrafast universal RNA-seq aligner 🧚💖

✨ NAME ✨

STAR — ultrafast universal RNA-seq aligner 🔥

✨ DESCRIPTION ✨

Okay so STAR stands for Spliced Transcripts Alignment to a Reference 🦋 It's built on a RNA-seq alignment algorithm that nobody had described before, and it's giving main character energy. It runs a sequential maximum mappable seed search in uncompressed suffix arrays, then does seed clustering and stitching. Literally iconic 💅

Here's the flex: STAR outperforms other aligners by a factor of >50 in mapping speed 😭 On a modest 12-core server it can align 550 million 2 × 76 bp paired-end reads per hour to the human genome, and it also improves alignment sensitivity and precision at the same time. No cap, that's unhinged 💀

STAR doesn't just do the basics either. It does unbiased de novo detection of canonical junctions, and it can discover non-canonical splices and chimeric (fusion) transcripts 🌈 It can even map full-length RNA sequences ✨

The authors also validated the vibes with receipts 🍓 They used Roche 454 sequencing of reverse transcription polymerase chain reaction amplicons and experimentally validated 1960 novel intergenic splice junctions with an 80-90% success rate. That corroborates the high precision of the STAR mapping strategy, so we love to see it 🫶

✨ SYNOPSIS ✨

STAR [options]... --genomeDir REFERENCE --readFilesIn R1.fq R2.fq

Bestie, you basically just tell it --genomeDir where your reference lives and --readFilesIn where your reads are 🎀

✨ SEE ALSO ✨

Real talk, this manpage is only a placeholder 🙈 For the full tea, check out /usr/share/doc/rna-star/STARmanual.pdf 📚

Stay iconic, STAR 2.604a, April 2018 💜 Bye bestie, go align some reads 🌸💅