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bulkAnalyseR
View on CRAN: Click
here
Download and install bulkAnalyseR package within the R console
Install from CRAN:
install.packages("bulkAnalyseR")
Install from Github:
library("remotes")
install_github("cran/bulkAnalyseR")
Install by package version:
library("remotes")
install_version("bulkAnalyseR", "1.1.0")
Attach the package and use:
library("bulkAnalyseR")
Maintained by
Ilias Moutsopoulos
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
10.32614/CRAN.package.bulkAnalyseR . https://github.com/Core-Bioinformatics/bulkAnalyseR/issues . https://github.com/Core-Bioinformatics/bulkAnalyseR . bulkAnalyseR results . bulkAnalyseR.pdf . A beginner's guide to creating a bulkAnalyseR app from a GEO dataset . bulkAnalyseR: Integrating multi-omics or external data . bulkAnalyseR: An accessible, interactive pipeline for analysing and sharing bulk sequencing results . bulkAnalyseR_1.1.0.tar.gz . bulkAnalyseR_1.1.0.zip . bulkAnalyseR_1.1.0.zip . bulkAnalyseR_1.1.0.zip . bulkAnalyseR_1.1.0.tgz . bulkAnalyseR_1.1.0.tgz . bulkAnalyseR_1.1.0.tgz . bulkAnalyseR_1.1.0.tgz . bulkAnalyseR_1.1.0.tgz . bulkAnalyseR archive . https://CRAN.R-project.org/package=bulkAnalyseR .
First Published: 2022-01-15
Latest Update: 2022-12-15
Description:
Given an expression matrix from a bulk sequencing experiment,
pre-processes it and creates a shiny app for interactive data
analysis and visualisation. The app contains quality checks,
differential expression analysis, volcano and cross plots,
enrichment analysis and gene regulatory network inference,
and can be customised to contain more panels by the user.
How to cite:
Ilias Moutsopoulos (2022). bulkAnalyseR: Interactive Shiny App for Bulk Sequencing Data. R package version 1.1.0, https://cran.r-project.org/web/packages/bulkAnalyseR. Accessed 07 Apr. 2025.
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Other R packages that bulkAnalyseR depends,
imports, suggests or enhances
Complete documentation for bulkAnalyseR
Functions, R codes and Examples using
the bulkAnalyseR R package
Some associated functions: DEanalysis . DEpanel . DEplotPanel . DEsummaryPanel . GRNCisPanel . GRNCustomPanel . GRNTransPanel . GRNpanel . QCpanel . calculate_condition_mean_sd_per_gene . crossPanel . cross_plot . determine_uds . enrichmentPanel . expression_heatmap . find_regulators_with_recurring_edges . generateShinyApp . genes_barplot . get_link_list_rename . infer_GRN . jaccard_heatmap . jaccard_index . landingPanel . ma_plot . make_heatmap_matrix . make_pattern_matrix . modalityPanel . noisyr_counts_with_plot . patternPanel . pipe . plot_GRN . plot_line_pattern . plot_pca . plot_upset . preprocessExpressionMatrix . preprocess_miRTarBase . qc_density_plot . qc_violin_plot . rescale_matrix . sampleSelectPanel . scatter_plot . volcano_plot .
Some associated R codes: DEfuns.R . DEpanel.R . DEplotFuns.R . DEplotPanel.R . DEsummaryFuns.R . DEsummaryPanel.R . GRNCisPanel.R . GRNCustomPanel.R . GRNTransPanel.R . GRNfuns.R . GRNpanel.R . QCpanel.R . QCplotFuns.R . crossPanel.R . cross_plot.R . enrichmentPanel.R . generateShinyApp.R . landingPanel.R . modalityPanel.R . patternFuns.R . patternPanel.R . preprocessExpressionMatrix.R . preprocess_miRTarBase.R . sampleSelectPanel.R . utils-pipe.R . Full bulkAnalyseR package functions and examples
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