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Novocraft Technologies

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Structure   Novocraft Technologies

Welcome to the Novocraft Technologies Wiki.


Here you will find a growing set of documentation on Novocraft products including user guides, performance information and reference manuals.

Contents:

  • Novoalign NGS Quick Start Tutorial
    • Basic short read mapping
    • Exome sequencing analysis
    • SNP and MicroIndel detection
    • microRNA mapping
    • Novoalign SAM format validation
    • Mapping reads with Cluster-Aware NovoalignMPI
    • Demultiplexing barcoded/indexed reads with Novobarcode
    • Extracting unmapped reads from a BAM file produced by novoalign
  • Novoalign User Guide
    • Getting Started
    • Adapter Stripping
      • 3 Prime Adapter Stripping
      • Paired End Short Fragment Detection and Adapter Stripping
      • PCR Adapter Stripping
    • Micro RNA
    • RNASeq analysis: mRNA and the Spliceosome
    • Bisulphite treated reads
      • Novomethyl - Analyzing Methylation Status
      • Regard the Bisulphite Treatment
    • Performance Notes
      • Long Single End Reads
      • Short vs Long Reads
      • HPCs
    • Quality Calibration
      • Bisulphite Treated DNA
      • The phiX Lane
      • Streptococcus suis Quality Calibration
    • Novoalign Command Line Options
      • Reporting Multiple Alignments per Read
      • Paired Read Modes
  • NovoalignCS
  • Novoindex - Indexing the Reference Genome
  • Novoutil - A collection of utility functions
  • Novosort
  • Novo2maq
  • User Contributions
    • Novopile
    • RNA_PEref - A set of perl tools to create a reference sequence set for paired end mapping of short transcriptome sequencing reads.
    • USeq Applications
  • Other Sequencing Platforms
    • Helioscope Reads
    • Polonator Reads
    • 454 Paired End Reads
    • ION Torrent PGM


Created by system. Last Modification: Thursday 26 of March, 2009 10:01:36 MYT by colin.

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