Li Lab:Softwares: Difference between revisions
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* [http://chipexo.sourceforge.net MACE]: Model Based Analysis of [http://en.wikipedia.org/wiki/ChIP-exo ChIP-exo] | * [http://chipexo.sourceforge.net MACE]: Model Based Analysis of [http://en.wikipedia.org/wiki/ChIP-exo ChIP-exo] (Nucleic Acids Res 2014) | ||
== Transcriptomics == | == Transcriptomics == | ||
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* [https://code.google.com/p/dapars/ DaPars]: Dynamic analysis of Alternative PolyAdenylation from RNA-seq | * [https://code.google.com/p/dapars/ DaPars]: Dynamic analysis of Alternative PolyAdenylation from RNA-seq (Nature 2014; Nature Communications 2015) | ||
Latest revision as of 11:41, 28 September 2014
Epigenomics
- MAT: Model-based Analysis of Tiling-array (PNAS 2006)
- CEAS: Cis-regulatory Element Annotation System (Nucleic Acids Res 2006)
- MACS: Model-based Analysis of ChIP-sequencing (Genome Biology 2008)
- BSMAP/RRBSmap: Whole genome (RRBS) Bisulfite Sequence MAPping program (BMC Bioinformatics 2009; Bioinformatics 2012)
- DANPOS: Dynamic Analysis of Nucleosome Position and Occupancy by Sequencing (Genome Research 2013)
- BSeQC: Quality Control of Bisulfite Sequencing Experiments (Bioinformatics 2013)
- MOABS: MOdel based Analysis of Bisulfite Sequencing data (Genome Biology 2014)
- DyChIPS: An integrate solution for dynamic analysis of ChIP-sequencing
Transcriptomics
- RSeQC: Quality Control of RNA-seq experiments (Bioinformatics 2012)
- CPAT: Coding-Potential Assessment Tool Using an Alignment-Free Logistic Regression Model (Nucleic Acids Res 2013)
- DaPars: Dynamic analysis of Alternative PolyAdenylation from RNA-seq (Nature 2014; Nature Communications 2015)
