| Deposited data |
|
| Raw proteomics dataset |
PeptideAtlas: PASS03810 |
https://peptideatlas.org/ |
| Raw metabolomics dataset |
MetaboLights: MTBLS7337 |
https://www.ebi.ac.uk/metabolights/ |
| Supplemental files |
Khoramjoo et al.2
|
https://data.mendeley.com/datasets/zyzt62gbrw/1 |
| GitHub repository |
Khoramjoo et al.3
|
https://github.com/MobinKhoramjoo/Biomarker-identification-by-multi-omics-analysis |
|
| Software and algorithms |
|
| R (v4.2.3) |
The R Project for Statistical Computing4
|
https://www.r-project.org/ |
| Python (v3.8.16) |
Jupyter Notebook |
https://www.python.org/doc/versions/ |
| dplyr (v1.1.4) |
Wickham et al.5
|
https://dplyr.tidyverse.org |
| ggplot2 (v3.4.4) |
Wickham et al.6
|
https://ggplot2.tidyverse.org |
| MetaboAnalystR (v4.0) |
Pang et al.7
|
https://github.com/xia-lab/MetaboAnalystR |
| ComplexHeatmap (v2.18.0) |
Gu et al.8
|
https://doi.org/10.18129/B9.bioc.ComplexHeatmap |
| Circlize (v 4.1.2) |
Gu et al.9
|
https://doi.org/10.1093/bioinformatics/btu393 |
| Numpy |
Harris et al.10
|
https://doi.org/10.1038/s41586-020-2649-2. |
| Pandas |
The pandas development team11
|
https://doi.org/10.5281/zenodo.3509134 |
| Matplotlib |
Hunter et al.12
|
https://doi.org/10.1109/MCSE.2007.55 |
| Scikit learn |
Buitinck et al.13
|
https://doi.org/10.48550/arXiv.1309.0238 |
| TensorFlow |
TensorFlow Developers14
|
https://doi.org/10.5281/zenodo.10126399 |
|
| Others |
|
| Computer with an operating system that can run software as listed above |
https://code.visualstudio.com, https://posit.co/downloads
|
https://code.visualstudio.com, https://posit.co/downloads
|
