Difference between revisions of "SeqMan NGen"
Annestover (talk | contribs) |
Annestover (talk | contribs) |
||
| Line 1: | Line 1: | ||
{{Bioinformatics application | {{Bioinformatics application | ||
|sw summary=Sequence assembly software using traditional, next-gen, and third-gen techonologies. Subsequent analysis of the assembly, including SNP discovery, coverage evaluation and consensus annotation is provided through full integration with Lasergene. | |sw summary=Sequence assembly software using traditional, next-gen, and third-gen techonologies. Subsequent analysis of the assembly, including SNP discovery, coverage evaluation and consensus annotation is provided through full integration with Lasergene. | ||
| − | |||
|bio domain=Genomics, De-novo assembly, De novo transcriptome assembly, Whole Genome Resequencing, SNP discovery, InDel discovery, ChIP-Seq, RNA-Seq Alignment | |bio domain=Genomics, De-novo assembly, De novo transcriptome assembly, Whole Genome Resequencing, SNP discovery, InDel discovery, ChIP-Seq, RNA-Seq Alignment | ||
|bio method=Mapping, Assembly, Alignment, Paired End | |bio method=Mapping, Assembly, Alignment, Paired End | ||
Revision as of 16:45, 19 May 2011
|
Application data |
|
| Biological application domain(s) | Genomics, De-novo assembly, De novo transcriptome assembly, Whole Genome Resequencing, SNP discovery, InDel discovery, ChIP-Seq, RNA-Seq Alignment |
|---|---|
| Principal bioinformatics method(s) | Mapping, Assembly, Alignment, Paired End |
| Technology | IonTorrent, 454, Illumina, ABI SOLiD, Helicos, Sanger |
| Created at | http://www.DNASTAR.com |
| Maintained? | Yes |
| Input format(s) | FASTA, FASTQ, Scarf, SFF, SQD, ACE, PHD, ABI, AB1, GFF, CSFASTA/CSQUAL (ABI SOLiD), SCF, TXT, GenBank, SEQ |
| Output format(s) | BAM, SAM, SQD, ACE, FASTA |
| Licence | Available as a standalone system or as a network license. |
| Operating system(s) | Windows, Mac OS X, Linux |
Summary: Sequence assembly software using traditional, next-gen, and third-gen techonologies. Subsequent analysis of the assembly, including SNP discovery, coverage evaluation and consensus annotation is provided through full integration with Lasergene.
"Error: no local variable "counter" was set." is not a number.
SeqMan NGen® is next-gen sequence assembly software that uses a patented algorithm to provide fast and accurate sequence assembly of data from all major next-gen and third-gen platforms, including Illumina, Roche 454, SOLiD, and Ion Torrent. SeqMan NGen represents a breakthrough in sequence assembly software as it has the ability to assemble human and other large eukaryotic genomes against a genomic template quickly and easily on a desktop computer. Optimized assembly parameter settings are automatically determined for you, based on your read technology and your specific project objective, such as genome assembly, targeted resequencing, and de novo transcriptome workflows.
SeqMan NGen is fully integrated with Lasergene's SeqMan Pro, so that once your assembly is complete, numerous tools are available for analyzing your project, including SNP and genotype calling using Bayesian statistical models, direct comparison to dbSNP, evaluating coverage, and annotating your consensus sequence.
The most recent version of SeqMan NGen is 3.0, which was initially released as a beta version in December 2010, and subsequently officially released in February 2011.
Links
References
- . 2010. BMC Genomics
- . 2011. BMC Genomics
- . 2012. BMC Genomics
- . 2012. PNAS
- . 2012. Journal of Bacteriology
- . 2012. Systematic biology
- . 2012. Microbiology
- . 2012. Proceedings: Biological Sciences / The Royal Society
- . 2012. Clinical and Vaccine Immunology
- . 2012. Journal of Bacteriology
- . 2012. PLoS One
- . 2012. Journal of Bacteriology
- . 2012. Applied Environmental Microbiology
- . 2012. Journal of Bacteriology
- . 2013. Genetics
- . 2013. Applied and Environmental Microbiology
- . 2013. Genome biology and evolution
To add a reference for SeqMan NGen, enter the PubMed ID in the field below and click 'Add'.
Search for "SeqMan NGen" in the SEQanswers forum / BioStar or:
| Web Search | Wiki Sites | Scientific |
|---|---|---|
