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目前 phenotype data 条目下还没有看到? 有在其他地方实现 subtype 的对比分析么?@lishensuo
另外已有 pancancer_conserved_immune_subtype 的数据
tcga_subtypes 的不知道也能否利用
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Hi all,
I'm trying to extract the TDA signatures that you generated for the TCGA PanCancer BRCA cohort. It seems like the `tcga_recurrence_pam50_vs_tdasignatures.csv` file should contain this infor…
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https://xenabrowser.net/datapages/?cohort=St%20Jude%20PCGP%20pan-cancer&removeHub=https%3A%2F%2Fxena.treehouse.gi.ucsc.edu%3A443
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Can you provide the exact dataset files to download?
I had downloaded following file:
```
PANCANCER_ANOVA.csv
DTP_NCI60_ZSCORE.xlsx
DTP_NCI60_RAW.xlsx
```
What is your current working directory…
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https://science.sciencemag.org/content/362/6413/eaav1898
https://gdc.cancer.gov/about-data/publications/ATACseq-AWG
jjgao updated
2 years ago
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Original Publication: https://gdc.cancer.gov/node/977
"The expression data for mRNA and miRNA were batch-corrected to adjust for platform differences between the GAII and HiSeq Illumina sequencers. "…
jjgao updated
2 years ago
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Solomon found another hardcoded value:
https://github.com/ICGC-TCGA-PanCancer/DEWrapperWorkflow/blob/develop/src/main/java/io/seqware/pancancer/DEWrapperWorkflow.java#L513
We've updated this manually…
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https://github.com/ICGC-TCGA-PanCancer/DEWrapperWorkflow/blob/develop/src/main/java/io/seqware/pancancer/DEWrapperWorkflow.java#L313
We are hardcoding the Delly Workflow folder name- this should eith…
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> getExprSet("pancancer_mRNA_exprSet.Rdata")
trying URL 'ftp://119.29.67.25/pub/pancancer_mRNA_exprSet.Rdata'
Error in download.file(file_url, file.path(outdir, file)) :
cannot open URL 'ftp://1…
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When I am trying to download files which has been approved by the DAC, and it shows in my datasets. But I can not download it through the PyEGA3.Following is log showing what the problem is.
pyega3 -…