https://github.com/mayurdivate/tcga_data_download

https://github.com/mayurdivate/tcga_data_download

Last synced: about 1 year ago
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• Host: GitHub
• URL: https://github.com/mayurdivate/tcga_data_download
• Owner: MayurDivate
• Created: 2019-07-08T06:26:33.000Z (almost 7 years ago)
• Default Branch: master
• Last Pushed: 2021-08-03T04:20:21.000Z (almost 5 years ago)
• Last Synced: 2025-02-17T17:56:07.555Z (over 1 year ago)
• Language: Python
• Size: 7.58 MB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md

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README

          
# TCGA_Download

![OS](https://img.shields.io/conda/pn/conda-forge/tensorflow.svg?color=green)

[![tensorflow](https://img.shields.io/pypi/pyversions/requests.svg)](https://pypi.org/project/requests/)

[![contri](https://img.shields.io/github/contributors/MayurDivate/TCGA_data_download.svg)](https://github.com/MayurDivate/TCGA_Data_Download/graphs/contributors)

This package provides utility to download data and meta-data from TCGA using its API.

#### Examples

##### rnaseq_metadata_for_fpkm_files.py

This python program download RNAseq metadata and process it page by page.

It limits max records per page to 100.

Results will be save in the tcga_rnaseq.tsv file by default.

To change default file, pas the file path with 'outfile' parameter while creating RNAseq class object.

## TCGA API documentation 

[Available fields](https://docs.gdc.cancer.gov/API/Users_Guide/Appendix_A_Available_Fields/)

[User Guide](https://docs.gdc.cancer.gov/API/Users_Guide/Search_and_Retrieval/)