|Biological application domain(s)||De-novo assembly|
|Principal bioinformatics method(s)||Assembly, Mapping|
|Technology||454, Sanger, Ion Torrent|
|Created at||454 Life Sciences|
|Input format(s)||SFF, FASTA, FASTQ|
|Output format(s)||FASTA, QUAL, ACE, AGP, BAM|
|Operating system(s)||Linux 64|
Summary: The assembly/mapping program developed by 454 Life Sciences for of 454 data
Newbler is in fact the core of both the gsAssembler/GS De Novo Assembler (GUI based), gsMapper/GS Reference Mapper Software /Gui based), runAssembly (command-line based) and gsMapper (command-line based). It uses k-mer based hashing and the 'overlap-layout-consensus' approach. Takes both shotgun and paired end reads.
Latest stable version is 2.6, which allows for the direct incorporation of Illumina fastq files (with mate-pair recognition), including those from the Sequence Read Archive. The sff files produced by the Ion Torrent platform are compatible with newbler.
To add a reference for Newbler, enter the PubMed ID in the field below and click 'Add'.