Online tools NGS

Online Tools

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TopHat

Mapping

 

TopHat is a fast splice junction mapper for RNA-Seq reads. It aligns RNA-Seq reads to mammalian-sized genomes using the ultra high-throughput short read aligner Bowtie, and then analyzes the mapping results to identify splice junctions between exons.

Author(s)

CBCB


Version

1.3.0


Subsections

Mapping


Tags

RNA-seq


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Velvet

Assembler

 

Velvet is a de novo genomic assembler specially designed for short read sequencing technologies, such as Solexa or 454, developed by Daniel Zerbino and Ewan Birney at the European Bioinformatics Institute (EMBL-EBI), near Cambridge, in the United Kingdom. Velvet currently takes in short read sequences, removes errors then produces high quality unique contigs. It then uses paired-end read and long read information, when available, to retrieve the repeated areas between contigs.

Author(s)

Daniel Zerbino and Ewan Birney


Version

0.7


Subsections

Assembler


Tags

De novo


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