User: Django
Django • 30
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Posts by Django
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C: About TCGA CNV data preprocessing
... I think the Error code means there is no element in "sample.tmp". And which() will return nothing. ...
written 26 days ago by
Django • 30
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Comment:
C: About TCGA CNV data preprocessing
... I have downloaded the masked CNV data filtered germline variation as input data and get the average of all probes per gene. If I just want to use CNV data for cluster analysis, is this right? Thank you for your sharing. Now I know the difference between variation and alteration. Thanks again!
...
written 7 weeks ago by
Django • 30
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Comment:
C: About TCGA CNV data preprocessing
... Hi,
Thanks for your help!
I just downloaded the CMV data from TCGA database and mapped genomic regions to gene symbols using the following code:
mart <- useMart(biomart="ensembl", dataset="hsapiens_gene_ensembl")
genes <- getBM(attributes=c("hgnc_symbol","chromosome_name","start_posit ...
written 8 weeks ago by
Django • 30
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... Hello all,
I am looking at the Level 3 CNV files on TCGA. I have a few questions:
I download copy number variance data from TCGA database and mapped genomic regions to gene symbols using this method(https://www.biostars.org/p/311199/#311746). Now i get a matrix that its rows are genes and its colum ...
written 8 weeks ago by
Django • 30
• updated
8 weeks ago by
Kevin Blighe ♦ 33k
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... Hello all,
I am looking at the Level 3 CNV files on TCGA. I have a few questions:
I have downloaded the CNV data from TCGA. The details are as follows:
GDC_Aliquot Chromosome Start End Num_Probes Segment_Mean Sample
9f3983d5-2f2d-4761-9b4d-4a2ea22ada7b 1 62920 953279 64 -0.2437 TCGA-AR-A0U0-10A- ...
written 8 weeks ago by
Django • 30
• updated
8 weeks ago by
Pin.Bioinf • 170
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