User: Talip Zengin
Talip Zengin • 10
- Reputation:
- 10
- Status:
- New User
- Location:
- Mugla, Turkiye
- Last seen:
- 5 hours ago
- Joined:
- 9 months, 2 weeks ago
- Email:
- z**********@gmail.com
Posts by Talip Zengin
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... Hello,
I tried to download maf file for a subset of patients (n=57) through their cases barcodes by using TCGAbiolinks but it downloads all samples (n=565). I tried two different codes below:
library(TCGAbiolinks)
library(SummarizedExperiment)
library(dplyr)
library(DT)
library(maftools)
maf < ...
written 5 hours ago by
Talip Zengin • 10
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... Yes, it works now. Thanks very much for your help.
...
written 7 days ago by
Talip Zengin • 10
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... Hello,
I perform CNV analysis by using TCGA data against hg38 and gaia package. After gaia results, at the annotation part, GenomicRanges gives error because of negative widths as below:
sCNV_GR <- makeGRangesFromDataFrame(sCNV,keep.extra.columns = TRUE)
Error in .Call2("solve_user_SEW0", start ...
written 7 days ago by
Talip Zengin • 10
• updated 7 days ago by
Sandro Morganella • 30
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... Thank so very much for your advices.
...
written 7 months ago by
Talip Zengin • 10
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... Hello everybody,
I am using TCGA LUAD RNAseq data for DEG analysis. There are data of 522 patients, only 59 of them have paired (have normal and tumor sample) data without replicates. Can I compare all data of tumor samples (522) against all data of normal samples (59)? Is it possible in statistics ...
written 7 months ago by
Talip Zengin • 10
• updated 7 months ago by
Michael Love ♦ 19k
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Comment:
C: TCGAbiolinks Download ERROR
... Thanks very much. It is working now. :)
...
written 9 months ago by
Talip Zengin • 10
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... Hi everybody,
I have got new error by using TCGAbiolinks today. I tried same commands in tutorial but got the error below. Why does it give this error? Is it possible that TCGA database has been changed again? How can we fix this problem? Is there a problem at package commands working at background ...
written 9 months ago by
Talip Zengin • 10
• updated 9 months ago by
eshelden • 20
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