:: DESCRIPTION
IntervalStats is an effective statistical evaluation of ChIPseq dataset similarity.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2012 Mar 1;28(5):607-13. doi: 10.1093/bioinformatics/bts009.
An effective statistical evaluation of ChIPseq dataset similarity.
Chikina MD, Troyanskaya OG.
:: DESCRIPTION
diHMM (Hierarchical Hidden Markov Model) is a novel computational method for finding chromatin states at multiple scales. The model takes as input a multidimensional set of histone modifications for several cell types and classifies the genome into a preselected number of nucleosome-level and domain-level hidden states.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Marco E, Meuleman W, Huang J, Glass K, Pinello L, Wang J, Kellis M, Yuan GC.
Multi-scale chromatin state annotation using a hierarchical hidden Markov model.
Nature Communications. 2017 Apr 7;8:15011.
:: DESCRIPTION
CCAT is a software package for the analysis of ChIP-seq data with negative control.
:: DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
A signal-noise model for significance analysis of ChIP-seq with negative control.
Xu H, Handoko L, Wei X, Ye C, Sheng J, Wei CL, Lin F, Sung WK.
Bioinformatics. 2010 May 1;26(9):1199-204
:: DESCRIPTION
ChIPSeqPeakFinder (ChIPSeq Peak Finder) is a tool to find peaks from ChIPSeq data generated from the Solexa / Illumina platform. Optionally, data from the peaks found can also be exported to simple textfile format for further usage.
:: DEVELOPER
Computational & Mathematical Biology Lab @ GIS
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Chen X. et al. (2008)
“Integration of External Signaling Pathways with the Core Transcriptional Network in Embryonic Stem Cells“.
Cell, Volume 133, Issue 6, 1106-1117,
:: DESCRIPTION
seqMINER is an integrated user friendly platform that allows addressing central questions in the ChIP-seq analysis workflow. The design of seqMINER was made in order to make it as easy as possible for an investigator to reach high level of interpretation on his dataset to answer its biological question at best.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Nucleic Acids Res. 2011 Mar;39(6):e35. doi: 10.1093/nar/gkq1287. Epub 2010 Dec 21.
seqMINER: an integrated ChIP-seq data interpretation platform.
Ye T, Krebs AR, Choukrallah MA, Keime C, Plewniak F, Davidson I, Tora L.
