Package: metevalue 0.2.4
Yifan Yang
metevalue: E-Value in the Omics Data Association Studies
In the omics data association studies, it is common to conduct the p-value corrections to control the false significance. Beyond the P-value corrections, E-value is recently studied to facilitate multiple testing correction based on V. Vovk and R. Wang (2021) <doi:10.1214/20-AOS2020>. This package provides E-value calculation for DNA methylation data and RNA-seq data. Currently, five data formats are supported: DNA methylation levels using DMR detection tools (BiSeq, DMRfinder, MethylKit, Metilene and other DNA methylation tools) and RNA-seq data. The relevant references are listed below: Katja Hebestreit and Hans-Ulrich Klein (2022) <doi:10.18129/B9.bioc.BiSeq>; Altuna Akalin et.al (2012) <doi:10.18129/B9.bioc.methylKit>.
Authors:
metevalue_0.2.4.tar.gz
metevalue_0.2.4.tar.gz(r-4.5-noble)metevalue_0.2.4.tar.gz(r-4.4-noble)
metevalue_0.2.4.tgz(r-4.4-emscripten)metevalue_0.2.4.tgz(r-4.3-emscripten)
metevalue.pdf |metevalue.html✨
metevalue/json (API)
| # Install 'metevalue' in R: |
| install.packages('metevalue', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- demo_DMRfinder_DMRs - DMRfinder Output Demo Dataset
- demo_DMRfinder_rate_combine - DMRfinder Methyrate Demo Dataset
- demo_biseq_DMR - BiSeq Output Demo Dataset
- demo_biseq_methyrate - BiSeq Methyrate Demo Dataset
- demo_desq_out - DESeq Output Dataset
- demo_methylkit_met_all - Methyrate output dataset from methylKit
- demo_methylkit_methyrate - Methyrate Dataset
- demo_metilene_input - Metilene Methyrate Demo Dataset
- demo_metilene_out - Metilene Demo Output Dataset
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 years agofrom:3d1acbdc40. Checks:OK: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 12 2024 |
| R-4.5-linux | OK | Dec 12 2024 |
Exports:evalue_buildin_sqlevalue_buildin_var_fmt_nmmetevalue.biseqmetevalue.biseq.chkmetevalue.DMRfindermetevalue.DMRfinder.chkmetevalue.methylKitmetevalue.methylKit.chkmetevalue.metilenemetevalue.metilene.chkmetevalue.RNA_generalvarevalue.metilenevarevalue.single_general
Dependencies:bitbit64blobcachemchronclicpp11DBIdplyrfansifastmapgenericsglueGPArotationgsubfnlatticelifecyclemagrittrmemoisemnormtnlmepillarpkgconfigplogrprotopsychR6rlangRSQLitesqldftibbletidyselectutf8vctrswithr
