BioXpress pipeline README: Difference between revisions
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== BioXpress Downloader Step == | |||
''Step 1 of the BioXpress pipeline'' | |||
The downloader step will use sample sheets obtained from [https://portal.gdc.cancer.gov/ GDC Data Portal] to download raw counts from RNA-Seq for Primary Tumor and Normal Tissue in all available TCGA Studies. | |||
=== General Flow of Scripts === | |||
get_data_all_samples.sh -> get_hits_into_dir.py -> | |||
merge_files_tumor_and_normal.sh | |||
Revision as of 15:01, 16 October 2024
BioXpress Downloader Step
Step 1 of the BioXpress pipeline
The downloader step will use sample sheets obtained from GDC Data Portal to download raw counts from RNA-Seq for Primary Tumor and Normal Tissue in all available TCGA Studies.
General Flow of Scripts
get_data_all_samples.sh -> get_hits_into_dir.py -> merge_files_tumor_and_normal.sh