What's next of SOAPdenovo2:
MEGAHIT is the formal successor of SOAPdenovo2
MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph
http://www.ncbi.nlm.nih.gov/pubmed/25609793
https://github.com/voutcn/megahit
Latest Code on GitHub:
https://github.com/aquaskyline/SOAPdenovo2
SOAPdenovo is a novel short-read assembly method that can build a de novo draft assembly for human-sized genomes.
Latest Codes on GitHub:
https://github.com/aquaskyline/SOAPdenovo-Trans
SOAPdenovo-Trans is a de novo transcriptome assembler inherited from the SOAPdenovo2 framework, designed for assembling transcriptome with alternative splicing and different expression level. The assembler provides a more comprehensive way to construct the full-length transcript sets compare to SOAPdenovo2.
Ensemble de novo sequence assembly of metagenomic data
EnsembleAssembler performs de novo assembly of pathogen genomes from metagenomic samples sequenced using Illumina platforms. EnsembleAssembler optimizes contig formation by integrating results from multiple assemblers including SOAPDenovo2, ABySS, MetaVelvet, and Cap3. The software does NOT perform preprocessing. The user needs to do preprocessing with other software before attempting for assembly.