Package: rna-star (2.7.11b+dfsg-1 and others)

[ Source: rna-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.

Tags: Biology: Nucleic Acids, Field: Biology, field::biology:bioinformatics, implemented-in::c++, Role: Program, Purpose: use::analysing, works-with::biological-sequence

Other Packages Related to rna-star

• dep: libc6 (>= 2.16) [x32]

  GNU C Library: Shared libraries
  also a virtual package provided by libc6-udeb

  dep: libc6 (>= 2.19) [sh4]

  dep: libc6 (>= 2.34) [not m68k, sh4, x32]

  dep: libc6 (>= 2.4) [m68k]

• dep: libgcc-s1 (>= 3.3.1) [amd64, arm64, mips64el]

  GCC support library

  dep: libgcc-s1 (>= 3.4.4) [ppc64el]

• dep: libgcc1 (>= 1:3.3.1) [x32]

  Package not available

  dep: libgcc1 (>= 1:4.2.1) [sh4]

• dep: libgcc2 (>= 4.2.1) [m68k]

  Package not available

• dep: libgomp1 (>= 4.9) [x32]

  GCC OpenMP (GOMP) support library

  dep: libgomp1 (>= 6) [not m68k, sh4, x32]

• dep: libhts1 (>= 1.0) [m68k, sh4, x32]

  Package not available

• dep: libhts3t64 (>= 1.17) [not m68k, sh4, x32]

  C library for high-throughput sequencing data formats

• dep: libstdc++6 (>= 13.1) [not m68k, sh4, x32]

  GNU Standard C++ Library v3

  dep: libstdc++6 (>= 4.9) [sh4]

  dep: libstdc++6 (>= 5.2) [m68k, x32]

Download rna-star

Download for all available architectures

Architecture	Version	Package Size	Installed Size	Files
amd64	2.7.11b+dfsg-1+b1	3,363.4 kB	21,608.0 kB	[list of files]
arm64	2.7.11b+dfsg-1+b1	702.8 kB	2,572.0 kB	[list of files]
m68k (unofficial port)	2.4.2a+dfsg-1+b1	314.5 kB	691.0 kB	[list of files]
mips64el	2.7.11b+dfsg-1+b1	678.8 kB	3,000.0 kB	[list of files]
ppc64el	2.7.11b+dfsg-1+b1	745.0 kB	2,956.0 kB	[list of files]
sh4 (unofficial port)	2.4.2a+dfsg-1	405.5 kB	734.0 kB	[list of files]
x32 (unofficial port)	2.5.2a+dfsg-2	361.0 kB	797.0 kB	[list of files]