1 Introduction | 2 Data Preparation and Input | 3 Simulation for Calculating omega Value | 4 Normalize the count data | 5 Perform Multiple Beta t-Tests on The Real Data | 6 Session Info
Package: MBttest 1.41.0
Yuan-De Tan
MBttest: Multiple Beta t-Tests
MBttest method was developed from beta t-test method of Baggerly et al(2003). Compared to baySeq (Hard castle and Kelly 2010), DESeq (Anders and Huber 2010) and exact test (Robinson and Smyth 2007, 2008) and the GLM of McCarthy et al(2012), MBttest is of high work efficiency,that is, it has high power, high conservativeness of FDR estimation and high stability. MBttest is suit- able to transcriptomic data, tag data, SAGE data (count data) from small samples or a few replicate libraries. It can be used to identify genes, mRNA isoforms or tags differentially expressed between two conditions.
Authors:
MBttest_1.41.0.tar.gz
MBttest_1.41.0.zip(r-4.7)MBttest_1.41.0.zip(r-4.6)MBttest_1.41.0.zip(r-4.5)
MBttest_1.41.0.tgz(r-4.6-any)MBttest_1.41.0.tgz(r-4.5-any)
MBttest_1.41.0.tar.gz(r-4.7-any)MBttest_1.41.0.tar.gz(r-4.6-any)
MBttest_1.41.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
MBttest/json (API)
| # Install 'MBttest' in R: |
| install.packages('MBttest', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
On BioConductor:MBttest-1.41.0(bioc 3.24)MBttest-1.40.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
sequencingdifferentialexpressionmultiplecomparisonsagegeneexpressiontranscriptionalternativesplicingcoveragedifferentialsplicing
Last updated from:ef6ce75d2b. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 146 | ||
| linux-devel-x86_64 | NOTE | 198 | ||
| source / vignettes | OK | 205 | ||
| linux-release-x86_64 | NOTE | 204 | ||
| macos-release-arm64 | NOTE | 89 | ||
| macos-oldrel-arm64 | NOTE | 79 | ||
| windows-devel | NOTE | 71 | ||
| windows-release | NOTE | 83 | ||
| windows-oldrel | NOTE | 115 | ||
| wasm-release | OK | 109 |
Exports:betaparametabbetaparametVPbetaparametwbetattestmaplotmbetattestmtproceduremtpvadjustmyheatmapoddratiopratiosimulatsmbetattest
Dependencies:bitopscaToolsgplotsgtoolsKernSmooth
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Multiple Beta t-tests | mBetatest-package mBetatest |
| Estimation of Beta Parameters alpha and beta | betaparametab |
| Estimation of Binomal Parameters V And P in Count Data of RNA Reads | betaparametVP |
| Estimation of proportion weights | betaparametw |
| Beta t-test | betattest |
| The Transcriptomic data and t-test results. | dat |
| Jurkat T-cell Transcritomic Data | jkttcell |
| MA plot of t-values Against Log Mean | maplot |
| Performance of multiple beta t-test on simulated data | mbetattest |
| Multiple-Test Procedures | mtprocedure |
| P-value Adjustment for Multiple Comparisons | mtpvadjust |
| Heatmap | myheatmap |
| Calculation of Zeta(zeta) | oddratio |
| Calculation of Psi(psi) | pratio |
| Simulation Data | simulat |
| Simulated Null Transcriptomic data | skjt |
| Performance of multiple Beta t-test on simulated data | smbetattest |
