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Appropriate genome reference for converting TCGA VCF files to MAF
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TCGA data downloaded from GDC
written by datanerdHI guys, I have downloaded a bunch pf projects from the TCGA data using the GDC client. I have a manifest files that I combined …
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TCGA-COAD: Mutation prediction from WSI
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Downloading data from 1000Genomes
written by peter •I need to download vcf files for all chromosomes from 1000Genomes from the following link: [1000Genome dataset][1] If you click on **'1000 Genomes on GRCh38'** …
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Extracting specific cancer types from MAF (Mutation Annotation Format) files from TCGA(The Cancer G…
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TCGABioLinks getManifest() function. How to alter saved file name?
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Downloading CADD scores
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How to retrieve metadata from the manifest data and UUID from genomic data commons (GDC)
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Converting TCGA/GDC IDs
written by krc3004 •Hi all, I'm using GDC to bulk download RNA-seq data from TCGA. I'm able to download data just fine, but the filenames are the UUIDs, …
If they are available then they would likely be at the legacy GDC.
Thank you for you reply. Yes I figured that out too. But legacy GDC won't let me enter a list barcodes unlike the current GDC. I will just liftover instead.