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ABySS, SAMtools, Velvet, FastQC, SeqMonk, BamTools, Newbler, CLCbio Genomics Workbench, Pindel, SeqMan NGen, BEDTools, STADEN, DNAA, Freebayes, IGV, MOSAIK, TMAP, Avadis NGS, BAMseek, Breakway, MagicViewer, Ngs backbone, MACS, Tablet, Dindel, Chipster, SeqSolve, SeqMINER, GAMES, Savant Genome Browser, GASV, BamView, Genomatix Mining Station (GMS), CopySeq, FREEC, BayesPeak, SAMStat, RTG Investigator, Syzygy, PALMapper, VarScan, GenoViewer, HeliSphere, Bcbio-nextgen, ChIP-Seq (application), Atlas Suite, Stampy, Integrated Genome Browser, SRMA, Bambino

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