Difference between revisions of "Resources"
From Zhang Laboratory
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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 19:55, 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)