bioconductor.org "MethylSeq" keyword
View the packages on the bioconductor.org package registry that are tagged with the "MethylSeq" keyword.
Top 2.4% on bioconductor.org
6 versions - Latest release: about 1 month ago - 2 dependent packages - 299 thousand downloads total - 1 maintainer
DiffBind 3.20.0
Differential Binding Analysis of ChIP-Seq Peak Data6 versions - Latest release: about 1 month ago - 2 dependent packages - 299 thousand downloads total - 1 maintainer
MPFE 1.46.0
Estimation of the amplicon methylation pattern distribution from bisulphite sequencing data6 versions - Latest release: about 1 month ago - 17.5 thousand downloads total - 1 maintainer
padma 1.20.0
Individualized Multi-Omic Pathway Deviation Scores Using Multiple Factor Analysis8 versions - Latest release: about 2 months ago - 9.48 thousand downloads total - 3 stars on GitHub - 1 maintainer
regioneReloaded 1.12.0
RegioneReloaded: Multiple Association for Genomic Region Sets6 versions - Latest release: about 1 month ago - 6.42 thousand downloads total - 5 stars on GitHub - 1 maintainer
Guitar 2.26.0
Guitar6 versions - Latest release: about 1 month ago - 30.1 thousand downloads total - 1 maintainer
COCOA 2.24.0
Coordinate Covariation Analysis6 versions - Latest release: about 1 month ago - 14.2 thousand downloads total - 1 maintainer
SingleMoleculeFootprinting 2.4.0
Analysis tools for Single Molecule Footprinting (SMF) data6 versions - Latest release: about 1 month ago - 8.32 thousand downloads total - 2 stars on GitHub - 1 maintainer
Top 8.6% on bioconductor.org
6 versions - Latest release: about 1 month ago - 2 dependent packages - 41.6 thousand downloads total - 1 maintainer
MethylSeekR 1.50.0
Segmentation of Bis-seq data6 versions - Latest release: about 1 month ago - 2 dependent packages - 41.6 thousand downloads total - 1 maintainer
epialleleR 1.18.0
Fast, Epiallele-Aware Methylation Caller and Reporter6 versions - Latest release: about 1 month ago - 9.06 thousand downloads total - 6 stars on GitHub - 1 maintainer
ramr 1.18.0
Detection of Rare Aberrantly Methylated Regions in Array and NGS Data6 versions - Latest release: about 1 month ago - 9.2 thousand downloads total - 0 stars on GitHub - 1 maintainer
TENET 1.2.0
R package for TENET (Tracing regulatory Element Networks using Epigenetic Traits) to identify key...3 versions - Latest release: about 1 month ago - 2.08 thousand downloads total - 1 stars on GitHub - 1 maintainer
Top 2.2% on bioconductor.org
7 versions - Latest release: about 1 month ago - 13 dependent packages - 318 thousand downloads total - 1 maintainer
regioneR 1.42.0
Association analysis of genomic regions based on permutation tests7 versions - Latest release: about 1 month ago - 13 dependent packages - 318 thousand downloads total - 1 maintainer
TransView 1.53.1
Read density map construction and accession. Visualization of ChIPSeq and RNASeq data sets7 versions - Latest release: about 1 month ago - 27.6 thousand downloads total - 1 maintainer
cfTools 1.10.0
Informatics Tools for Cell-Free DNA Study6 versions - Latest release: about 1 month ago - 5.81 thousand downloads total - 6 stars on GitHub - 1 maintainer
MIRA 1.32.0
Methylation-Based Inference of Regulatory Activity6 versions - Latest release: about 1 month ago - 1 dependent package - 17.4 thousand downloads total - 1 maintainer
GEM 1.36.0
GEM: fast association study for the interplay of Gene, Environment and Methylation6 versions - Latest release: about 1 month ago - 15.7 thousand downloads total - 1 maintainer
methylPipe 1.44.0
Base resolution DNA methylation data analysis7 versions - Latest release: about 1 month ago - 1 dependent package - 28.8 thousand downloads total - 1 maintainer
BEAT 1.48.0
BEAT - BS-Seq Epimutation Analysis Toolkit6 versions - Latest release: about 1 month ago - 24.5 thousand downloads total - 1 maintainer
Top 3.8% on bioconductor.org
6 versions - Latest release: about 1 month ago - 1 dependent package - 85.2 thousand downloads total - 1 maintainer
Repitools 1.56.0
Epigenomic tools6 versions - Latest release: about 1 month ago - 1 dependent package - 85.2 thousand downloads total - 1 maintainer
MAGAR 1.18.0
MAGAR: R-package to compute methylation Quantitative Trait Loci (methQTL) from DNA methylation an...6 versions - Latest release: about 1 month ago - 9.73 thousand downloads total - 0 stars on GitHub - 1 maintainer
RgnTX 1.11.1
Colocalization analysis of transcriptome elements in the presence of isoform heterogeneity and am...6 versions - Latest release: about 1 month ago - 6.06 thousand downloads total - 1 maintainer
biscuiteer 1.24.0
Convenience Functions for Biscuit6 versions - Latest release: about 2 months ago - 13.9 thousand downloads total - 6 stars on GitHub - 1 maintainer
dinoR 1.6.0
Differential NOMe-seq analysis4 versions - Latest release: about 1 month ago - 4.59 thousand downloads total - 0 stars on GitHub - 1 maintainer
Top 4.7% on bioconductor.org
6 versions - Latest release: about 1 month ago - 1 dependent package - 78.7 thousand downloads total - 1 maintainer
RnBeads 2.28.0
RnBeads6 versions - Latest release: about 1 month ago - 1 dependent package - 78.7 thousand downloads total - 1 maintainer
Top 9.5% on bioconductor.org
7 versions - Latest release: about 1 month ago - 46 thousand downloads total - 1 maintainer
BiSeq 1.50.0
Processing and analyzing bisulfite sequencing data7 versions - Latest release: about 1 month ago - 46 thousand downloads total - 1 maintainer
Top 3.8% on bioconductor.org
7 versions - Latest release: about 1 month ago - 3 dependent packages - 148 thousand downloads total - 238 stars on GitHub - 2 maintainers
methylKit 1.36.0
DNA methylation analysis from high-throughput bisulfite sequencing results7 versions - Latest release: about 1 month ago - 3 dependent packages - 148 thousand downloads total - 238 stars on GitHub - 2 maintainers
Top 5.9% on bioconductor.org
7 versions - Latest release: about 2 months ago - 3 dependent packages - 272 thousand downloads total - 54 stars on GitHub - 1 maintainer
systemPipeR 2.16.0
systemPipeR: Workflow Environment for Data Analysis and Report Generation7 versions - Latest release: about 2 months ago - 3 dependent packages - 272 thousand downloads total - 54 stars on GitHub - 1 maintainer
Top 3.4% on bioconductor.org
7 versions - Latest release: about 1 month ago - 2 dependent packages - 112 thousand downloads total - 1 maintainer
QuasR 1.50.0
Quantify and Annotate Short Reads in R7 versions - Latest release: about 1 month ago - 2 dependent packages - 112 thousand downloads total - 1 maintainer
msgbsR 1.34.0
msgbsR: methylation sensitive genotyping by sequencing (MS-GBS) R functions6 versions - Latest release: about 2 months ago - 15.1 thousand downloads total - 1 maintainer
methInheritSim 1.32.0
Simulating Whole-Genome Inherited Bisulphite Sequencing Data6 versions - Latest release: about 2 months ago - 1 dependent package - 14.6 thousand downloads total - 2 stars on GitHub - 1 maintainer
ChromSCape 1.20.0
Analysis of single-cell epigenomics datasets with a Shiny App6 versions - Latest release: about 2 months ago - 9.56 thousand downloads total - 14 stars on GitHub - 1 maintainer
LOLA 1.39.1
Locus overlap analysis for enrichment of genomic ranges6 versions - Latest release: about 2 months ago - 5 dependent packages - 40.1 thousand downloads total - 1 maintainer
Top 2.9% on bioconductor.org
7 versions - Latest release: about 2 months ago - 8 dependent packages - 132 thousand downloads total - 344 stars on GitHub - 1 maintainer
karyoploteR 1.36.0
Plot customizable linear genomes displaying arbitrary data7 versions - Latest release: about 2 months ago - 8 dependent packages - 132 thousand downloads total - 344 stars on GitHub - 1 maintainer
methylSig 1.22.0
MethylSig: Differential Methylation Testing for WGBS and RRBS Data6 versions - Latest release: about 2 months ago - 12.8 thousand downloads total - 15 stars on GitHub - 1 maintainer
methylCC 1.24.1
Estimate the cell composition of whole blood in DNA methylation samples7 versions - Latest release: 25 days ago - 12.4 thousand downloads total - 18 stars on GitHub - 1 maintainer
coMET 1.40.0 removed
coMET: visualisation of regional epigenome-wide association scan (EWAS) results and DNA co-methyl...6 versions - Latest release: 9 months ago - 24.4 thousand downloads total - 1 maintainer
methylInheritance 1.34.0
Permutation-Based Analysis associating Conserved Differentially Methylated Elements Across Multip...7 versions - Latest release: about 1 month ago - 1 dependent package - 15.6 thousand downloads total - 0 stars on GitHub - 1 maintainer
epihet 1.16.0 removed
Determining Epigenetic Heterogeneity from Bisulfite Sequencing Data1 version - Latest release: about 2 years ago - 4.09 thousand downloads total - 3 stars on GitHub - 1 maintainer
COHCAP 1.49.0 removed
CpG Island Analysis Pipeline for Illumina Methylation Array and Targeted BS-Seq Data3 versions - Latest release: over 1 year ago - 20.1 thousand downloads total - 1 maintainer
exomePeak2 1.14.3 removed
Peak Calling and differential analysis for MeRIP-Seq6 versions - Latest release: about 2 years ago - 8.74 thousand downloads total - 23 stars on GitHub - 1 maintainer
Related Keywords
Software
40
DNAMethylation
26
Sequencing
26
Epigenetics
19
DifferentialMethylation
14
ChIPSeq
12
ImmunoOncology
11
RNASeq
9
DataImport
8
Genetics
8
MethylationArray
8
Coverage
8
QualityControl
7
GeneExpression
6
FunctionalGenomics
6
Visualization
5
Microarray
5
MultipleComparison
5
GeneRegulation
5
Transcription
5
bioconductor
4
Preprocessing
4
DNASeq
4
CopyNumberVariation
4
Clustering
4
WholeGenome
3
GeneSetEnrichment
3
GenomeAnnotation
3
BatchEffect
3
SNP
3
SystemsBiology
3
Regression
3
dna-methylation
3
Alignment
3
StatisticalMethod
3
ATACSeq
3
PrincipalComponent
3
BiomedicalInformatics
3
DifferentialPeakCalling
3
ReportWriting
3
bioinformatics
2
PeakDetection
2
Normalization
2
GenomeWideAssociation
2
HistoneModification
2
DNaseSeq
2
CpGIsland
2
CellBiology
2
TwoChannel
2
methylation
2
r
2
inheritance
2
RiboSeq
2
BiologicalQuestion
2
SplicedAlignment
2
Pathways
2
next-generation-sequencing
2
NucleosomePositioning
2
cpg
1
bisulphite-sequencing
1
differentially-methylated-elements
1
monte-carlo-sampling
1
analysis
1
simulation
1
Annotation
1
Classification
1
ShinyApps
1
MotifAnnotation
1
permutation
1
SingleCell
1
epigenomics
1
shiny
1
ExomeSeq
1
differential-methylation
1
rstats
1
plotting-in-r
1
single-cell
1
genomics-visualization
1
genome
1
OneChannel
1
data-visualization
1
RIPSeq
1
HighThroughputSequencingData
1
BioCarta
1
GenomicVariation
1
DataRepresentation
1
LongRead
1
epiallele
1
samtools
1
aberrant-methylation
1
epimutation
1
methylation-microarrays
1
DifferentialExpression
1
GeneTarget
1
Survival
1
Transcriptomics
1
GUI
1
GeneticVariability
1
GraphAndNetwork
1
Network
1