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Store and query public TCGA data

Project Description

pytcga

Python library for accessing and processing public TCGA data

Examples

Loading Clinical Data

import pytcga

# Downloading and loading LUAD patient data
clinical = pytcga.load_clinical_data('luad')

Loading Mutation Data

import pytcga

# Downloading and loading LUAD mutations
luad_mutations = \
    pytcga.load_mutation_data(disease_code='LUAD', with_clinical=False)


# Also appends clinical data with `with_clinical` flag
luad_mutations = \
    pytcga.load_mutation_data(disease_code='LUAD', with_clinical=True)

# Filter variants with the `variant_type` argument
# variant_type = {'all', 'indel', SNP', 'INS', 'DEL'}
luad_indel_mutations = \
    pytcga.load_mutation_data(disease_code='LUAD', with_clinical=True, variant_type='indel')

Loading RNASeq Data

import pytcga

# Downloading and loading LUAD mutations
luad_rnaseq = \
    pytcga.load_rnaseq_data(disease_code='LUAD', with_clinical=True)
Release History

Release History

This version
History Node

0.0.4

History Node

0.0.3

History Node

0.0.2

History Node

0.0.1

Download Files

Download Files

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File Name & Checksum SHA256 Checksum Help Version File Type Upload Date
pytcga-0.0.4.tar.gz (6.2 kB) Copy SHA256 Checksum SHA256 Source Jan 17, 2016

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