Cited in
(66)- Error correction in methylation profiling from NGS bisulfite protocols
- Comparative assessment of alignment algorithms for NGS data: features, considerations, implementations, and future
- BiocManager
- AUGUSTUS
- GATK
- HiTEC
- FASTX
- BSgenome
- Gviz
- Trimmomatic
- sva
- TFBSTools
- HIVE-hexagon
- BS Seeker
- BSmooth
- BISMA
- Bisulfighter
- BSMAP
- COHCAP
- DMAP
- methylKit
- MOABS
- PASS-bis
- RRBSMAP
- SAAP-RRBS
- gage
- ChromHMM
- Bowtie 2
- Tabix
- QuasR
- GenomicRanges
- mrsFAST
- systemPipeR
- BatMeth
- CAP-miRSeq
- CUSHAW
- MAP-RSeq
- Pash
- PSAR-Align
- Socrates
- PePr
- MethylCoder
- Rqc
- Rsamtools
- BiSeq
- compGenomRData
- deFuse
- genomation
- GenomicAlignments
- gmapR
- GISTIC2.0
- iClusterPlus
- MAnorm
- MethylSeekR
- normr
- ODIN
- Rbowtie
- rGADEM
- rGREAT
- Trim Galore
- Chromatyping: Reconstructing Nucleosome Profiles from NOMe Sequencing Data
- HMM-DM: identifying differentially methylated regions using a hidden Markov model
- ChromaClique
- intePareto
- ART
- Computational genomics with R. With the assistance of Verdan Franke, Bora Uyar and Jonathan Ronen
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