Package: magpie 1.7.0

Daoyu Duan

magpie: MeRIP-Seq data Analysis for Genomic Power Investigation and Evaluation

This package aims to perform power analysis for the MeRIP-seq study. It calculates FDR, FDC, power, and precision under various study design parameters, including but not limited to sample size, sequencing depth, and testing method. It can also output results into .xlsx files or produce corresponding figures of choice.

Authors:Daoyu Duan [aut, cre], Zhenxing Guo [aut]

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

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

Peer review:

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

Datasets:
  • power.test - Power calculation results for GSE46705
  • power.test - Power calculation results for GSE46705
  • power.test - Power calculation results for GSE46705
  • power.test - Power calculation results for GSE46705
  • power.test - Power calculation results for GSE46705
  • power.test - Power calculation results for GSE46705

On BioConductor:magpie-1.7.0(bioc 3.21)magpie-1.6.0(bioc 3.20)

epitranscriptomicsdifferentialmethylationsequencingrnaseqsoftware

4.60 score 40 scripts 119 downloads 8 exports 99 dependencies

Last updated 3 months agofrom:c0a41dc913. Checks:1 OK, 6 WARNING. Indexed: yes.

TargetResultLatest binary
Doc / VignettesOKJan 17 2025
R-4.5-winWARNINGJan 17 2025
R-4.5-linuxWARNINGJan 17 2025
R-4.4-winWARNINGJan 17 2025
R-4.4-macWARNINGJan 17 2025
R-4.3-winWARNINGJan 17 2025
R-4.3-macWARNINGJan 17 2025

Exports:plotAllplotAll_StrataplotResplotStratapowerEvalquickPowerwriteToxlsxwriteToxlsx_strata

Dependencies:abindAnnotationDbiaodaskpassBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobcachemclicodetoolscolorspacecpp11crayoncurlDBIDelayedArrayDESeq2fansifarverfastmapformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicFeaturesGenomicRangesggplot2gluegtablehttrIRangesisobandjsonliteKEGGRESTlabelinglambda.rlatticelifecyclelocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmeopensslopenxlsxpillarpkgconfigplogrplyrpngR6RColorBrewerRcppRcppArmadilloRCurlreshape2restfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorsscalessnowSparseArraystringistringrSummarizedExperimentsystibbleTRESSUCSC.utilsutf8vctrsviridisLitewithrXMLXVectoryamlzip

magpie Package User's Guide

Daoyu Duan, Zhenxing Guo

Rendered frommagpie.Rmdusingknitr::rmarkdownon Jan 17 2025.

Last update: 2023-02-19
Started: 2023-01-13