Package: ctsGE 1.33.0

Michal Sharabi-Schwager

ctsGE: Clustering of Time Series Gene Expression data

Methodology for supervised clustering of potentially many predictor variables, such as genes etc., in time series datasets Provides functions that help the user assigning genes to predefined set of model profiles.

Authors:Michal Sharabi-Schwager [aut, cre], Ron Ophir [aut]

ctsGE_1.33.0.tar.gz
ctsGE_1.33.0.zip(r-4.5)ctsGE_1.33.0.zip(r-4.4)ctsGE_1.33.0.zip(r-4.3)
ctsGE_1.33.0.tgz(r-4.4-any)ctsGE_1.33.0.tgz(r-4.3-any)
ctsGE_1.33.0.tar.gz(r-4.5-noble)ctsGE_1.33.0.tar.gz(r-4.4-noble)
ctsGE_1.33.0.tgz(r-4.4-emscripten)ctsGE_1.33.0.tgz(r-4.3-emscripten)
ctsGE.pdf |ctsGE.html✨
ctsGE/json (API)

# Install 'ctsGE' in R:

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

Bug tracker:https://github.com/michalsharabi/ctsge/issues

On BioConductor:ctsGE-1.33.0(bioc 3.21)ctsGE-1.32.0(bioc 3.20)

immunooncology geneexpression transcription differentialexpression genesetenrichment genetics bayesian clustering timecourse sequencing rnaseq

4.00 score 1 stars 3 scripts 188 downloads 1 mentions 6 exports 63 dependencies

Last updated 3 months agofrom:ae475eec45. Checks:5 OK, 2 NOTE. Indexed: yes.

Target	Result	Latest binary
Doc / Vignettes	OK	Jan 06 2025
R-4.5-win	NOTE	Jan 06 2025
R-4.5-linux	NOTE	Jan 06 2025
R-4.4-win	OK	Jan 06 2025
R-4.4-mac	OK	Jan 06 2025
R-4.3-win	OK	Jan 06 2025
R-4.3-mac	OK	Jan 06 2025

Exports:ClustIndexes ctsGEShinyApp index PlotIndexesClust PreparingTheIndexes readTSGE

Dependencies:base64enc bslib cachem ccaPP cli colorspace commonmark crayon DEoptimR digest fansi farver fastmap fontawesome fs ggplot2 glue gtable htmltools httpuv isoband jquerylib jsonlite labeling later lattice lifecycle limma magrittr MASS Matrix memoise mgcv mime munsell mvtnorm nlme pcaPP pillar pkgconfig plyr promises R6 rappdirs RColorBrewer Rcpp RcppArmadillo reshape2 rlang robustbase sass scales shiny sourcetools statmod stringi stringr tibble utf8 vctrs viridisLite withr xtable

ctsGE Package

Michal Sharabi-Schwager, Ron Ophir

Rendered fromctsGE.Rmdusingknitr::rmarkdownon Jan 06 2025.

Last update: 2018-08-30
Started: 2016-07-19

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Clustering the indexes applying K-means	ClustIndexes
GUI for interactive exploration of gene expression data.	ctsGEShinyApp
Indexing function	index
Graphic visualization of an index	PlotIndexesClust
Define an expression index for each gene	PreparingTheIndexes
Read and merge a set of files containing gene expression data	readTSGE