Sequedex
Application data |
|
Created by | Joel Berendzen, Ben McMahon, Judith Cohn, Nick Hengartner, and Mira Dimitrijevic |
---|---|
Biological application domain(s) | Metagenomics, phylogenetics, Genomics |
Principal bioinformatics method(s) | Sequence analysis, Sequence annotation |
Technology | Illumina HiSeq, Illumina Solexa, Illumina |
Created at | Los Alamos National Lab |
Maintained? | Yes |
Input format(s) | FASTA, FASTQ |
Output format(s) | Multiple hits per read, FASTA, FASTQ |
Software features | Fast, protein fragments identified |
Programming language(s) | Java, Python |
Licence | Commercial, Freeware |
Operating system(s) | Linux 64, Mac OS X |
Summary: Sequedex classifies short reads for phylogeny and function at high speed
"Error: no local variable "counter" was set." is not a number.
Description
Sequedex is a signature-based method to classify the function and phylogeny of reads as short as 30 bp. For typical metagenomics applications, it works at ~6Gbp/hr/core, some 250,000 times faster than BLASTX against the NR database.
Links
References
To add a reference for Sequedex, enter the PubMed ID in the field below and click 'Add'.
[ edit box ]
Search for "Sequedex" in the SEQanswers forum / BioStar or:
Web Search | Wiki Sites | Scientific |
---|---|---|