cBioFetchR-package: Visualize profiling data on a NaviCell map

Description Author(s) References Examples

Description

Provides functions to visualize any kind of biological profiling data on a NaviCell map in a biologically relevant manner. Also contains functions to import datasets from cBioportal which format them for NaviCell export.

Author(s)

Mathurin Dorel [email protected]

Maintainer : Mathurin Dorel [email protected]

References

TODO

Examples

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conn = CGDS("http://www.cbioportal.org/")

#Selection of the study id
studies = getCancerStudies(conn)
st_id = studies$cancer_study_id[1]

# Fetch data from cBioPortal for ACSN genes
fetcher= cBioNCviz(genes_list="http://acsn.curie.fr/files/acsn_v1.1.gmt", cell_type="Acute Myeloid Leukemia", cbio_data=genes_data)
# Save Data
saveDat(fetcher)

sysbio-curie/cBioFetchR documentation built on May 31, 2019, 12:48 a.m.