Useful Links

1. EBI's Velvet assembler page: http://www.ebi.ac.uk/~zerbino/velvet/
   
   (You can subscribe to the very useful Velvet mailing list from there)


2. BGI's SOAPdenovo assembler page: http://soap.genomics.org.cn/soapdenovo.html


3. NCBI's Short Read Archive Website for all genome/transcriptome studies submitted to NCBI:
   
   http://www.ncbi.nlm.nih.gov/sra
   
   This is the website that we used to download sample data for ngsShoRT. Some of the tested genomes/transcriptomes include:
   
   
   • C.elegans (Accession: SRX026594): http://trace.ncbi.nlm.nih.gov/Traces/sra/?study=SRP003487
   • Potato (Accession: SRX046966): http://trace.ncbi.nlm.nih.gov/Traces/sra/?study=SRP005965
   • Rhodobacter(Accession: SRX016066): http://trace.ncbi.nlm.nih.gov/Traces/sra/?study=SRP001079
   
   Note that the downloaded files are .sra; you ll need SRAToolKit to extract fastq or qseq files from them

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Center for Bioinformatics and Computational Biology
University of Delaware
© 2014