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NextGENe
Next Generation Sequencing Software

SNP & Indel discovery with Ion Torrent data

Ion Torrent systems, including Ion PGM System, Ion Proton System, and Ion S5 XL System, are fundamentally different from most other sequencing systems. It is a "post-light" technology because it doesn't depend on detection of light emission from nucleotide incorporation. Instead, it uses a silicon chip containing millions of individual pH meters. Its flow-based approach detects pH changes caused by release of hydrogen ion during incorporation of unmodified nucleotides in DNA replication. Because of this different approach to sequencing, the instrument and reagents are much less expensive and it has a unique error profile- most errors are indels rather than substitutions, especially in homopolymer regions. SoftGenetics has created Ion Torrent specific algorithms to best handle the Ion Torrent data profile, improving the data quality to greater than 99.8%, when paired end reads are used.

NextGENe software will quickly de-multiplex pooled or barcoded samples for individual analysis. The included Pipeline Tool can be employed to create multiple sequential analysis projects.

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Alignment and Variant Calling
RNA-Seq
Other Applications
Features
Sample Comparison Tools
Working with Unique Molecular Identifiers (UMIs)
Reporting
Reference Genomes and Variant Annotation
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