-
首先感谢曾教授及其团队的贡献
在跑tutorial时,有两个问题:
其一,在使用seurat v5和其配套的seuratobject运行find_markers_in_bulk时发生错误,后面在降级到v4就能够正常运行了,是新版IOBR不支持v5还是我电脑配置问题呢?
其二,在使用TCGAbiolinks获取突变数据时,发生Error in `dplyr::bind_rows()`:…
-
Hi,
it is very useful package! I download fpkm gene expression data from TCGA by TCGAbiolinks package, and i try to get the immune subtypes of the LUAD samples by using this package.when i compare t…
-
https://github.com/federicomarini/quantiseqr/blob/94e91fc190c8d876b15c0ae52199a5e7deb0f9ab/R/quantiseqr_helpers.R#L433
I am attempting to run quantiseq on the expression data from TCGA-STAD which I…
-
```
x jhu-usc.edu_READ.HumanMethylation450.Level_3.7.3.0/jhu-usc.edu_READ.HumanMethylation450.7.lvl-3.TCGA-07-0227-20A-01D-A39G-05.txt
x jhu-usc.edu_READ.HumanMethylation450.Level_3.7.3.0/jhu-usc.edu_…
-
Hi there,
since GDC release 23 there is a new readout for TCGA, 'Allele-specific Copy Number Segment'. It would be great if it were downloadable in TCGAbiolinks via:
```R
query.cnv = TCGAbiolin…
-
After downloading GDC data, it stops at "prepare progress" without any progress nor error message
-
Hi,
I would like to download TCGA SARC data from GDC by TCGAbiolinks package.I wrote below code for that pupose:
```
query
-
I was looking for the mutation data through TCGA portal using TCGAbiolinks and I have realized that sample size are not the same.
for instance TCGA-OV case TCGA data portal shows 419 cases, however…
-
Has consideration been given to renaming TCGAbiolinks to GDCbiolinks? Soon, the GDC Portal will have many more datasets than just TCGA and TARGET, so TCGAbiolinks won't adequately describe its functio…
-
I found one problem when I tried to download the data:
Error in dplyr::bind_rows(): ! Can't combine ..368$Tumor_Seq_Allele2 and ..369$Tumor_Seq_Allele2 .
Whether is this a problem in the GDC …