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" ]1 ?4 j6 w0 D, a) thttps://www.biostars.org/p/164929/
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1 {. j4 {9 Z- C. \2 w$ ^& TBeadScan: Analysing data from Illumina BeadArrays7 s" K9 e, H) R2 F: d$ ]) g5 X
BisReadMapper: Library-free methylation sequencing with bisulfite padlock
3 n0 |: a; s5 t8 C/ v1 IBRAT: Highly configurable and well-documented three‑letter bisulphite aligner
3 J9 S& W2 N/ YBSMAP: Probably the most widely used wild-card bisulphite aligner; p: `9 R x! `+ D, w# a+ O
BSmooth is a pipeline for analyzing WGBS data: aligning, quality control, and identifying DMRs.
$ ^8 A" _8 b5 P! ~6 U8 ~ComBat: R script for correcting known or suspected batch effects
4 V. W, U. m" [DMAP: differential methylation analysis package for RRBS and WGBS data.4 r! y$ q- K v; _: ?' Z3 s
GenomeStudio: GenomeStudio Methylation Module v1.8
/ N0 c1 r' a* Q: a! X2 K6 PGSNAP: Wild-card bisulphite aligner included in a widely used general-purpose
; D7 W) ]- _! V) s6 i5 yisva: R package for batch effect correction using an algorithm
( [* q2 F, q2 T$ eMethylCoder: Three‑letter bisulphite aligner that can be used with either Bowtie and Bowtie2
. j6 x9 ^- p4 bmethylumi: R/Bioconductor package for Infinium data normalization5 y! Z) t" q9 k; K2 U2 h
minfi: R/Bioconductor package for Infinium data normalization, analysis- h" c: ]9 S# w* y
Pash: Wild-card bisulphite aligner included in a general-purpose alignment tool
7 q# P. y' n* K/ ARMAP: Wild-card bisulphite aligner included in a general-purpose alignment tool8 P8 ^: [. ^. A7 V
RnBeads: R package providing a software pipeline for Infinium data normalization,
" b6 U0 u" T9 O/ p1 N- b; }5 T% xRRBSMAP: Variant of BSMAP that is specialized on reduced-representation
7 K) H6 U8 C" T, _- v6 Q$ R1 [, hsegemehl: Wild-card bisulphite aligner included in a general-purpose alignment tool& v% w$ F; |) `0 s3 _ I) f/ |
SVA: R/Bioconductor package for correcting batch effects
9 L+ v& l& V& Z+ M5 TmethyLiftover: cross-platform DNA methylation data integration
: W! A' {! _/ e' t8 K/ a$ K" W% jdariober's methylation-cafe: https://github.com/dariober/bioinformatics-cafe, M) U, }/ H" Z, @
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发表于 2016-4-25 02:29
发表于 2016-4-25 09:30
