User:YuLabLauren/sandbox/ChIA-PET5
< User:YuLabLauren | sandbox
Lauren's edits to ChIA-PET section 5:
Analysis and software
| Software | Definition |
|---|---|
| C3PET | A software suite for processing ChIA-PET data. Uses a non-parametric Bayesian approach to predict chromatin interacting protein complexes. [1] [2] |
| ChIA-PET Tool | A software suite for processing ChIA-PET data. [3] [4] |
| ChIA-PET2 | A software suite for processing ChIA-PET data. Supports data from a variety of protocols and provides quality control of data analysis. [5] [6] |
| ChIA-Sig | A software suite for processing ChIA-PET data using the NCHG model. ChIA-Sig web site[7] [8] |
| ELAND | Maps ChIP enriched DNA fragments to the reference human genome.[9] |
| Mango | A software suite for processing ChIA-PET data. Completes all required steps of processing ChIA-PET datasets and provides statistical confidence estimates for interactions. [10] [11] |
| Monte Carlo Simulation | Used to estimate the false discovery rates.[1] |
| GenomicInteractions | An R package for processing ChIA-PET or Hi-C data. [12] [13] |
| GIVE | A programming library for creating a custom genome browser compatible with ChIA-PET or Hi-C data. [14] [15] |
| RepeatMasker | In-silico masking of repetitive elements.[16] |