How to download multiple .maf files for multiple cases from TCGA?
For a given case on TCGA, how do I download all the other mutations (along with the mutation of interest) for that case using barcodes?
Instead of manually downloading the .maf files for each case, what barcodes should I provide in my R script while using TCGA biolinks package in R?
Here, the given barcodes are common for all the cases, irrespective of the case with my mutation of interest:
1 answer
I found downloading MAF files are more convenient. But to you specific questions, all GDC tables and apps are powered by backend APIs.
• 0 views
•
link
written
by
Zhenyu Zhang
Log in to answer this question.
More posts like this
-
How to get full list of TCGA patients with mutation data
written by heochin59 •
-
different sample size between TCGA portal and TCGAbiolinks package
written by tyasird •
-
What does TCGA uses a a reference for making snp annotation?
written by mariamcurbelo2061 •
-
Are the somatic mutations in TCGA filtered for germline mutations?
written by rafi.zon •
-
Identify driver mutations instead of genes
written by Gene_MMP8
-
Can splice-site mutations be treated as gene knock-outs?
written by sviatoslav.kendall
-
Multiple TCGA expression datasets
written by george.wiggins •
-
MAF specification TCGA : Variant_Classification
written by crichard •
-
Variant allele frequency in TCGA and ICGC
written by Maarten Slagter
-
Confusion regarding selection of TCGA maf files for analysis
written by monukmr98
