STAR - ultrafast universal RNA-seq aligner
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.
STAR [options]... --genomeDir REFERENCE --readFilesIn R1.fq R2.fq
This manpage is only a placeholder. You can get extensive information by using
/usr/share/doc/rna-star/STARmanual.pdf.