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Set of tools and pipelines to analyse GDSC data (

Project description Documentation Status

BSD License

Note:Developed and tested for Python 2.7, 3.5, 3.6
Note:The GDSCTools libary works for Python 2.7 and 3.X but the standalone pipeline to be ran on cluster works on Python 3.X only (requires Snakemake).
Contributions:Please join project
Documentation:On ReadTheDocs
GitHub:On github


Genomics of Drug Sensitivity in Cancer (GDSC) tools including pipelines related to


pip install gdsctools

For beginners, please visit the main documentation Installation section.


You will need 2 input matrices:

  1. an IC50 matrix with COSMIC identifiers as rows and drugs as columns,
  2. a genomic feature matrix with COSMIC identifiers as rows and features as columns.

Then, you can analyse the data with the standalone application:

gdsctools_anova --input-ic50 ic50.txt --input-features features.txt

or as a script:

from gdsctools import anova, ic50_test
an = ANOVA(ic50_test, features_filename)  # second arg is optional

More examples are provided in the documentation on ReadThedoc.

Note that first versions (ANOVA analysis) were based on repository. New tools have been added (regression based on Ridge, Lasso, OmniBEM tool, …).

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gdsctools-1.0.1.tar.gz (4.7 MB view hashes)

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