Package | Version |
|---|---|
affy | 1.74.0 |
argparse | 2.2.2 |
ArrayExpress | 1.56.0 |
AnnotationDbi | 1.60.2 |
Biobase | 2.56.0 |
BiocGenerics | 0.44.0 |
ComplexHeatmap | 2.12.1 |
ComplexUpset | 1.3.3 |
clusterProfiler | 4.9.0.2 |
dichromat | 2.0.0.1 |
dplyr | 1.1.2 |
DT | 0.28 |
flextable | 0.9.1 |
GEOquery | 2.64.2 |
ggdendro | 0.1.23 |
ggforce | 0.4.1 |
ggpubr | 0.6.0 |
ggnewscale | 0.4.9 |
ggrepel | 0.9.3 |
ggplot2 | 3.4.2 |
glue | 1.6.2 |
ggVennDiagram | 1.2.2 |
Hmisc | 5.1.0 |
hugene10sttranscriptcluster.db | 8.8.0 |
hgu133plus2.db | 3.13.0 |
hgu95av2.db | 3.13.0 |
hgu95a.db | 3.13.0 |
hgu95b.db | 3.13.0 |
hgu95c.db | 3.13.0 |
hgu95d.db | 3.13.0 |
hgu95e.db | 3.13.0 |
illuminaHumanv4.db | 1.26.0 |
limma | 3.52.2 |
lumi | 2.48.0 |
KEGG.db | 1.0 |
magick | 2.7.4 |
metafor | 4.2.0 |
officer | 0.6.2 |
pacman | 0.5.1 |
plyr | 1.8.8 |
parallel | 4.2.0 |
org.Hs.eg.db | 3.16.0 |
ReactomePA | 1.40.0 |
S4Vectors | 0.34.0 |
SummarizedExperiment | 1.26.1 |
stringr | 1.5.0 |
sf | 1.0.13 |
sva | 3.44.0 |
tidyr | 1.3.0 |
tidyverse | 2.0.0 |
All bioinformatics and statistical analysis were conducted using version 4.2.0 of the R software.
All steps of the analysis and the code are available on the T2D-Meta-Analysis GitHub, while the code used to maintain this website is available on the SDT2D-Metafun GitHub.
The next table shows the R packages used and their version.