User: Wenhu_Cao

gravatar for Wenhu_Cao
Wenhu_Cao50
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7 hours ago
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1 year, 5 months ago
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Posts by Wenhu_Cao

<prev • 36 results • page 1 of 4 • next >
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Answer: A: GISTIC segment overlap error
... Thanks for the jet lag between me and most biostars, it gives me time to solve this problem by my own. The reason now seems trivial, however, I will note it for completeness. I substringed the first 12 chars of `Tumor-Sample-Barcode` to get patient only barcode for further analysis. The problem is ...
written 3 months ago by Wenhu_Cao50
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Comment: C: GISTIC segment overlap error
... I think I may find a possibl cause, which is collapsing barcode to patients (first 12 chars) would cause different sample types of the same patient to have only one name. I will try this idea and let you know the results. ...
written 3 months ago by Wenhu_Cao50
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GISTIC segment overlap error
... Hi everyone, I am a little confused about the error complained by GISTIC: GISTIC 2.0 input error detected: 169 segment overlaps detected in file '/path/***.seg.txt'. First overlap detected between segments at lines 26227 and 26377. I checked the first overlap lines in R, they are belo ...
gistic scna cnv snp written 3 months ago by Wenhu_Cao50 • updated 28 days ago by ysh0
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P-hacking or not in pan-cancer analysis
... Hi guys, I have read a few pan-cancer analysis papers, really big papers from CNS. Then, I am confused about the way what they are doing with the data. Normally, the data come from TCGA or other similar databases, these data are collected without any scientific hypothesis beforehand obviously, jus ...
p-value genome pan-cancer written 4 months ago by Wenhu_Cao50
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Comment: C: how to make this plot for mutation?
... Hi, I wonder if the maftools could make oncoplot including both scna and mutation data? Thx! ...
written 4 months ago by Wenhu_Cao50
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Comment: C: Where are mutation files (MAF) for TCGA normal samples on Firebrowse
... Yeah, I also think so. ...
written 4 months ago by Wenhu_Cao50
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Comment: A: Where are mutation files (MAF) for TCGA normal samples on Firebrowse
... Have you known the differences between this two files yet? ...
written 4 months ago by Wenhu_Cao50
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Comment: C: Clinical Survival data of TCGA
... Although things have changed a lot now, but I do like the spirit of your script:) ...
written 4 months ago by Wenhu_Cao50
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Comment: C: Which Journals Should I Follow If I Write Software And Algorithms In Computation
... As a new fish, I did not find the place holding articles from the 3 conference, could you pls give a hint? ...
written 5 months ago by Wenhu_Cao50
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Comment: C: Recommendation for applied bioinformatics labs focusing on cancer biology
... Because I am looking for positions, I think it is better to have an at least un-exhaustive list somewhere for starters. This lab I mentioned is publishing very interesting papers every year, so I noticed it. Even there are 1000s, only a few you could remember. ...
written 6 months ago by Wenhu_Cao50

Latest awards to Wenhu_Cao

Popular Question 8 months ago, created a question with more than 1,000 views. For Error "Can't locate List/MoreUtils.pm in @INC"
Popular Question 12 months ago, created a question with more than 1,000 views. For Error "Can't locate List/MoreUtils.pm in @INC"
Supporter 15 months ago, voted at least 25 times.

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