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Hello Dr Vivian:
I developed a raw pipeline following your instruction. I checked the RSEM gene expression results on Xena:
https://xenabrowser.net/datapages/?dataset=tcga_RSEM_gene_fpkm&host=ht…
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The `PANCAN_mutation` dataset ([online doc](https://genome-cancer.soe.ucsc.edu/proj/site/xena/datapages/?dataset=TCGA.PANCAN.sampleMap/PANCAN_mutation&host=https://tcga.xenahubs.net)) contains several…
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example: the ccle bulk download file is not available by design, but the website still shows a download url link.
https://xenabrowser.net/datapages/?dataset=ccle%2FCCLE_DepMap_18Q2_RNAseq_RPKM_201…
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The gene name labels (the first column with the colored boxes) is so narrow it is causing the box to have a scroll bar.
What it looks like on dev:
![Screen Shot 2022-07-22 at 12.10.53 PM.png](https:…
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The tumor data used as input is from the treehouse dataset, available here: https://xenabrowser.net/datapages/?dataset=TumorCompendium_v10_PolyA_hugo_log2tpm_58581genes_2019-07-25.tsv&host=https%…
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https://xenabrowser.net/import/
Users currently have to make a choice below, which is difficult for them. Add auto-detection functionality to auto-select file format for users
![image](https://u…
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Build derived datasets for TCGA
For each sample, number of mutations -- this measures tumor mutation load, mutations include all types of mutations.
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Right now we show the shape of the distribution for the transcript view. It would be great to offer people either the mean and std, or probably even better would be to offer them a download of the dat…
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