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Why 3 RNA-seq bams for same sample/aliquot_barcode?
manifest GDCdownload GenomicDataCommons
21 months ago xiaofeiwang198266 • 0
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848
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GenomicDataCommons: Retrieve patient data for RPPA samples
TCGA GenomicDataCommons GDC
written 22 months ago by ▴ 510
3
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2
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1.5k
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How to obtain clinical data from TCGA via Bioconductor GenomicDataCommons
TCGA GenomicDataCommons
updated 3.4 years ago by ★ 3.4k • written 3.5 years ago by ▴ 10
4
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4
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1.9k
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2 questions: why there is nothing for file_ids? How could I generate a manifest file with filtering of Race and Ethnicity?
GenomicDataCommons
3.8 years ago • updated 3.7 years ago xiaofeiwang18266 ▴ 60
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1.2k
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Getting number of cases added by date to TCGA project with `GenomicDataCommons`
TCGA GenomicDataCommons
4.1 years ago Ezgi ▴ 60
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4
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3.3k
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extract TCGA barcodes and sample_type information from uuids
GenomicDataCommons R
updated 3.7 years ago by ▴ 60 • written 5.2 years ago by ▴ 40
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11
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5.1k
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Matching TCGA Aliquot ID to UUID or Barcode
TCGAutils TCGAbiolinks GenomicDataCommons
updated 5.8 years ago by 700 • written 5.8 years ago by ★ 1.6k
4
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2
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1.5k
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GenomicDataCommons request timeouts when cases() %>% ... %>% results_all()
genomicdatacommons tcga gdc rest http
updated 6.3 years ago by 21k • written 6.3 years ago by ▴ 20
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Comment: EuroBioC2023 abstract submission is open! by arden • 0
Woohoo! Abstract submission for EuroBioC2023 is open! Time to dust off my research and get those submissions ready. Hope to see some awesom…
Comment: Gene Ontology (GO) Analysis by GA ▴ 10
Thank you!
Comment: DESEQ2 - Correctly altering log2foldchange when switching comparison direction ( by sk • 0
If I use factor to create the Condition_SCR_vs_WT coef, then the other chefs would be Condition_KD1_vs_WT and Condition_KD2_vs_WT, but I ne…
Comment: How to load scRNA-seq data from GEO by petergrahamclark • 0
the paper I'm working off suggests removing all cells where the UMI is less than 2000. I assume we don't have enough data for umi counts. c…
Comment: How to load scRNA-seq data from GEO by Gordon Smyth 52k
I suggest you use readMM() as advised by James, but then do a massive amount of cell filtering before doing any other conversions or creati…
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Comment: How to load scRNA-seq data from GEO
limma correction for tumor purity
limma correction for tumor purity
Answer: limma correction for tumor purity
Answer: limma correction for tumor purity
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