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▪ Websites
- Bisulfite-treated reads analysis tool http://compbio.cs.ucr.edu/brat/
- Bisulfite sequence mapping program http://code.google.com/p/bsmap/
- BS seeker http://pellegrini.mcdb.ucla.edu/BS_Seeker/BS_Seeker.html
- Batman: a Bayesian tool for methylation analysis http://td-blade.gurdon.cam.ac.uk/software/batman/
- Nucleosome positioning from sequencing http://liulab.dfci.harvard.edu/NPS/
- Weiqun Peng http://home.gwu.edu/∼wpeng/Software.htm
- Genome-wide identification of differential histone modification sites from ChIP-Seq data http://cmb.gis.a-star.edu.sg/ChIPSeq/paperChIPDiff.htm
- ChromaSig: A probabilistic approach to finding common chromatin signatures http://bioinformatics-renlab.ucsd.edu/rentrac/wiki/ChromaSig
- Babraham bioinformatics www.bioinformatics.bbsrc.ac.uk/projects/bismark/
- Genome-scale DNA methylation mapping of human disease samples at single-basepair resolution www.broadinstitute.org/%7Ecbock/papers/rrbs-techdev/index.html
- MEDIPS: Software for the analysis of MeDIP-seq data http://medips.molgen.mpg.de/index.html
- Babraham Bioinformatics: SeqMonk mapped sequence analysis tool www.bioinformatics.bbsrc.ac.uk/projects/seqmonk/