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Aligners (Sanger sequencing analysis)

Aligners for Sanger sequencing analysis.

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MIRA
Desktop

MIRA Mimicking Intelligent Read Assembly

Uses a Swiss army knife of sequence assembly developed and used in the past 16…

Uses a Swiss army knife of sequence assembly developed and used in the past 16 years to get assembly jobs done efficiently - and especially accurately. MIRA is a whole genome shotgun (WGS) and EST…

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SSAHA
Desktop

SSAHA Sequence Search and Alignment by Hashing Algorithm

A pairwise sequence alignment program designed for the efficient mapping of…

A pairwise sequence alignment program designed for the efficient mapping of sequencing reads onto genomic reference sequences. SSAHA reads of most sequencing platforms (ABI-Sanger, Roche 454,…

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Consed
Desktop

Consed

A program for viewing and editing assemblies prepared by the Phrap assembly…

A program for viewing and editing assemblies prepared by the Phrap assembly program. To allow full-feature editing of large datasets while keeping memory requirements low, we developed a viewer,…

PineSAP
Desktop

PineSAP Pine Alignment and SNP Identification Pipeline

Provides a high-throughput solution to single nucleotide polymorphism (SNP)…

Provides a high-throughput solution to single nucleotide polymorphism (SNP) prediction using multiple sequence alignments from re-sequencing data. This pipeline integrates a hybrid of customized…

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SMALT
Desktop

SMALT

Efficiently aligns DNA sequencing reads with a reference genome. SMALT employs…

Efficiently aligns DNA sequencing reads with a reference genome. SMALT employs a hash index of short words (< 21 nucleotides long), sampled at equidistant steps along the genomic reference…

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