:: DESCRIPTION
Spectacle impelements a spectral learning algorithm for hidden Markov models for epigenomic data.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Genome Biol. 2015 Feb 12;16(1):33. doi: 10.1186/s13059-015-0598-0.
Spectacle: fast chromatin state annotation using spectral learning.
Song J, Chen KC.
:: DESCRIPTION
Epigram is an analysis pipeline that predicts histone modification and DNA methylation patterns from DNA motifs.
::DEVELOPER
:: SCREENSHOTS
N/A
::REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Nat Methods. 2015 Mar;12(3):265-72. doi: 10.1038/nmeth.3065. Epub 2014 Sep 21.
Predicting the human epigenome from DNA motifs.
Whitaker JW, Chen Z, Wang W
:: DESCRIPTION
ExomePeak is a software for affinity-based RNA epigenome sequencing data obtained from MeRIP-seq or m6A-seq
::DEVELOPER
:: SCREENSHOTS
N/A
::REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformatics. 2013 Jun 15;29(12):1565-7. doi: 10.1093/bioinformatics/btt171. Epub 2013 Apr 14.
Exome-based analysis for RNA epigenome sequencing data.
Meng J1, Cui X, Rao MK, Chen Y, Huang Y.
:: DESCRIPTION
GsmPlot is a web service to automatically download, analyze and visualize epigenetics data (ChIP-Seq, ATAC-Seq, Bis-Seq), public from NCBI or private from you.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
BMC Bioinformatics, 21 (1), 55 2020 Feb 12
GsmPlot: A Web Server to Visualize Epigenome Data in NCBI
Jia Li , Yue Yin , Mutian Zhang , Jie Cui , Zhenhai Zhang , Zhiyong Zhang , Deqiang Sun
:: DESCRIPTION
APEG uses a biophysical model to analyze transcription (TF)-DNA binding data, such as ChIP-seq data by incorporating epigenomic modifications and genome sequence data. This model can learn synergistic and antagonistic interactions between specific TFs and epigenomic modifications from genome-wide TF binding and epigenomic data.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
PLoS Comput Biol. 2013;9(12):e1003367. doi: 10.1371/journal.pcbi.1003367.
Understanding variation in transcription factor binding by modeling transcription factor genome-epigenome interactions.
Chen CC, Xiao S, Xie D, Cao X, Song CX, Wang T, He C, Zhong S.
