Package: mist 0.99.18

Daoyu Duan

mist: Differential Methylation Analysis for scDNAm Data

mist (Methylation Inference for Single-cell along Trajectory) is a hierarchical Bayesian framework for modeling DNA methylation trajectories and performing differential methylation (DM) analysis in single-cell DNA methylation (scDNAm) data. It estimates developmental-stage-specific variations, identifies genomic features with drastic changes along pseudotime, and, for two phenotypic groups, detects features with distinct temporal methylation patterns. mist uses Gibbs sampling to estimate parameters for temporal changes and stage-specific variations.

Authors:Daoyu Duan [aut, cre]

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mist.pdf |mist.html✨
mist/json (API)
NEWS

# Install 'mist' in R:
install.packages('mist', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/dxd429/mist/issues

On BioConductor:mist-0.99.18(bioc 3.21)

epigeneticsdifferentialmethylationdnamethylationsinglecellsoftware

4.73 score 12 scripts 28 downloads 4 exports 111 dependencies

Last updated 1 months agofrom:85e7fb65fa. Checks:1 OK, 5 WARNING. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKFeb 22 2025
R-4.5-winWARNINGFeb 22 2025
R-4.5-macWARNINGFeb 22 2025
R-4.5-linuxWARNINGFeb 22 2025
R-4.4-winWARNINGFeb 22 2025
R-4.4-macWARNINGFeb 22 2025

Exports:dmSingledmTwoGroupsestiParamplotGene

Dependencies:abindaskpassbackportsBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitopsbootbroomcarcarDataclicodacodetoolscolorspacecowplotcpp11crayoncurlDelayedArrayDerivdoBydplyrfansifarverformatRFormulafutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicRangesggplot2gluegtablehttrIRangesisobandjsonlitelabelinglambda.rlatticelifecyclelme4magrittrMASSMatrixMatrixGenericsMatrixModelsmatrixStatsmcmcMCMCpackmgcvmicrobenchmarkmimeminqamodelrmunsellmvtnormnlmenloptrnnetnumDerivopensslpbkrtestpillarpkgconfigpurrrquantregR6rbibutilsRColorBrewerRcppRcppEigenRCurlRdpackreformulasrestfulrRhtslibrjsonrlangRsamtoolsrtracklayerS4ArraysS4VectorsscalesSingleCellExperimentsnowSparseArraySparseMstringistringrSummarizedExperimentsurvivalsystibbletidyrtidyselectUCSC.utilsutf8vctrsviridisLitewithrXMLXVectoryaml

mist:methylation inference for single-cell along trajectory

Rendered frommist_vignette.Rmdusingknitr::rmarkdownon Feb 22 2025.

Last update: 2025-01-22
Started: 2024-10-25