Package: SDAMS 1.25.0

Yuntong Li

SDAMS: Differential Abundant/Expression Analysis for Metabolomics, Proteomics and single-cell RNA sequencing Data

This Package utilizes a Semi-parametric Differential Abundance/expression analysis (SDA) method for metabolomics and proteomics data from mass spectrometry as well as single-cell RNA sequencing data. SDA is able to robustly handle non-normally distributed data and provides a clear quantification of the effect size.

Authors:Yuntong Li <[email protected]>, Chi Wang <[email protected]>, Li Chen <[email protected]>

SDAMS_1.25.0.tar.gz
SDAMS_1.25.0.zip(r-4.5)SDAMS_1.25.0.zip(r-4.4)SDAMS_1.25.0.zip(r-4.3)
SDAMS_1.25.0.tgz(r-4.4-any)SDAMS_1.25.0.tgz(r-4.3-any)
SDAMS_1.25.0.tar.gz(r-4.5-noble)SDAMS_1.25.0.tar.gz(r-4.4-noble)
SDAMS_1.25.0.tgz(r-4.4-emscripten)SDAMS_1.25.0.tgz(r-4.3-emscripten)
SDAMS.pdf |SDAMS.html✨
SDAMS/json (API)
NEWS

# Install 'SDAMS' in R:

install.packages('SDAMS', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

exampleSingleCell - Two example datasets for SDAMS package
exampleSumExp - Two example datasets for SDAMS package

On BioConductor:SDAMS-1.25.0(bioc 3.20)SDAMS-1.24.0(bioc 3.19)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

bioconductor-package

3 exports 0.91 score 60 dependencies 2 mentions

Last updated 2 months agofrom:06b53de174

Exports:createSEFromCSV createSEFromMatrix SDA

Dependencies:abind askpass Biobase BiocGenerics cli colorspace crayon curl DelayedArray fansi farver GenomeInfoDb GenomeInfoDbData GenomicRanges ggplot2 glue gtable httr IRanges isoband jsonlite labeling lattice lifecycle magrittr MASS Matrix MatrixGenerics matrixStats mgcv mime munsell nlme openssl pillar pkgconfig plyr qvalue R6 RColorBrewer Rcpp reshape2 rlang S4Arrays S4Vectors scales SparseArray stringi stringr SummarizedExperiment sys tibble trust UCSC.utils utf8 vctrs viridisLite withr XVector zlibbioc

SDAMS Vignette

Rendered fromSDAMS.Rnwusingutils::Sweaveon Jun 14 2024.

Last update: 2023-07-26
Started: 2018-02-01

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
SDAMS package for differential abundance/expression analysis of Metabolomics, Proteomics and single-cell RNA sequencing data	SDAMS-package
Mass spectrometry data input	createSEFromCSV createSEFromMatrix dataInput
Two example datasets for SDAMS package	exampleData exampleSingleCell exampleSumExp
Semi-parametric differential abuandance/expression analysis	SDA