rnaSPAdes

While RNA-Seq is commonly used for model organisms with well-known genomes, multiple projects study species with previously unsequenced genome. Since finishing a genome can be costly and challenging (especially when the genome is large), RNA-Seq can be used for the purpose of de novo transcriptome assembly. Due to varying expression levels of different isoforms and genes, RNA-Seq data sets are characterized by highly uneven coverage depth — a problem that was successfully addressed by SPAdes genome assembler. rnaSPAdes is a SPAdes tool, modified and tuned for assembling transcripts from RNA-Seq data.

rnaSPAdes is distributed as a part of SPAdes assembler.

SPAdes 3.13.1

See changes in changelog

Download SPAdes binaries for Linux (64-bit only)

Download SPAdes binaries for MacOS

Download SPAdes source code

SPAdes 3.13.0

See changes in changelog

Download SPAdes binaries for Linux (64-bit only)

Download SPAdes binaries for MacOS

Download SPAdes source code

Manuals

rnaSPAdes manual

SPAdes manual with installation guide (ver 3.13.1)

 

Publications