---
name: "STAR"
section: "1"
platform: "linux"
package: "rna-star"
version: "2.7.11b+dfsg-2+b2"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/STAR"
---

# STAR(1)

ultrafast universal RNA-seq aligner

## NAME

STAR - ultrafast universal RNA-seq aligner

## DESCRIPTION

Spliced Transcripts Alignment to a Reference (STAR) software based on a previously undescribed RNA-seq alignment algorithm that uses sequential maximum mappable seed search in uncompressed suffix arrays followed by seed clustering and stitching procedure. STAR outperforms other aligners by a factor of \>50 in mapping speed, aligning to the human genome 550 million 2 × 76 bp paired-end reads per hour on a modest 12-core server, while at the same time improving alignment sensitivity and precision. In addition to unbiased de novo detection of canonical junctions, STAR can discover non-canonical splices and chimeric (fusion) transcripts, and is also capable of mapping full-length RNA sequences. Using Roche 454 sequencing of reverse transcription polymerase chain reaction amplicons, the authors experimentally validated 1960 novel intergenic splice junctions with an 80-90% success rate, corroborating the high precision of the STAR mapping strategy.

## SYNOPSIS

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

## SEE ALSO

This manpage is only a placeholder.  You can get extensive information by using /usr/share/doc/rna-star/STARmanual.pdf.