References

Python libraries

sci-dat is designed for Python >=3.6 and requires the following libraries, which will be automatically installed:

Library	Version	Reference
GDC data portal	>= 1.0.1	See their documentation for citation at: https://gdc.cancer.gov/about-data/data-availability
TCGA, NIH	UI v1.25.1, API v3.0.0	Tomczak, K., Czerwińska, P., & Wiznerowicz, M. (2015). The Cancer Genome Atlas (TCGA): An immeasurable source of knowledge. Contemporary Oncology, 19(1A), A68–A77. https://doi.org/10.5114/wo.2014.47136
NumPy	>= 1.9.0	Harris, C.R., Millman, K.J., van der Walt, S.J. et al. Array programming with NumPy. Nature 585, 357–362 (2020). DOI: 0.1038/s41586-020-2649-2
tqdm	>= 4.31.0
pandas	>= 1.0.3
sciutil	>= 1.0.3
scibiomart	>= 1.0.1
sciviso	>= 1.0.1	ToDO
Ensembl Biomart	Release 25	Sarah E Hunt, William McLaren, Laurent Gil, Anja Thormann, Helen Schuilenburg, Dan Sheppard, Andrew Parton, Irina M Armean, Stephen J Trevanion, Paul Flicek, Fiona Cunningham, Ensembl variation resources, Database Volume 2018, doi:10.1093/database/bay119

We strongly encourage you to cite the other python packages, GDC data portal, and Ensembl biomart