Difference between revisions of "Resources"

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(Software)
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**scripts for cross linking induced truncation site (CITS) analysis are now included.
 
**scripts for cross linking induced truncation site (CITS) analysis are now included.
 
*'''mCarts''': hidden Markov model (HMM) based methods to predict clusters RNA motif sites ([[mCarts_Documentation|documentation]], [[mCarts_Documentation#Download|download]])
 
*'''mCarts''': hidden Markov model (HMM) based methods to predict clusters RNA motif sites ([[mCarts_Documentation|documentation]], [[mCarts_Documentation#Download|download]])
 +
*'''mRIN''': direct assessment of mRNA integrity from RNA-Seq data ([[mRIN|documentation]])
 
*'''NDDcluster''': nonparametric "shape free" clustering algorithm based on normalized density derivatives ([[NDDcluster|site]])
 
*'''NDDcluster''': nonparametric "shape free" clustering algorithm based on normalized density derivatives ([[NDDcluster|site]])
 
*'''OLego''': A tool for fast and accurate mapping of exon-junction reads ([[OLego|site]], [[OLego_Documentation|documentation]], [[OLego_Documentation#Download|download]])
 
*'''OLego''': A tool for fast and accurate mapping of exon-junction reads ([[OLego|site]], [[OLego_Documentation|documentation]], [[OLego_Documentation#Download|download]])

Revision as of 20:55, 6 June 2015

Software

  • CIMS: Crosslinking induced mutation site (CIMS) analysis. It also includes some other tools for CLIP data analysis (documentation, download)
    • scripts for cross linking induced truncation site (CITS) analysis are now included.
  • mCarts: hidden Markov model (HMM) based methods to predict clusters RNA motif sites (documentation, download)
  • mRIN: direct assessment of mRNA integrity from RNA-Seq data (documentation)
  • NDDcluster: nonparametric "shape free" clustering algorithm based on normalized density derivatives (site)
  • OLego: A tool for fast and accurate mapping of exon-junction reads (site, documentation, download)
  • Quantas: A pipeline to analyze alternative splicing using RNA-Seq (documentation,download)

Datasets