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when I checking the batch analysis code _tcga/r_scripts/All_Tumor_batch_analysisFA.R_ , the input file was not mentioned. may I know how those *FA.RData looks like? Are they just read count / normali…
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Hi,
I want to download idat files of some specified for each cancer type in TCGA using R TCGAbiolinks.
I used the following code:
```
query GDCdownload -> GDCclientInstall -> download
Executi…
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### Context
Someone requested for an experiment `GSE130226` which exists on refine.bio under a different accession [SRP193559](https://www.refine.bio/experiments/SRP193559/inactivation-of-cftr-by-c…
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## The issue
`abagen` currently offers a number of different methods for probe selection. Probe selection is required when there are several (>1) probes indexing the same gene; there exist several …
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Transferred from #20 (which is a bit of a catchall as well as kind of old) ...
Val:
I think first we would like to be able to do "expression levels" in Canto as that is the one we use the most. …
mah11 updated
4 years ago
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/almeidasilvaf/BioNERO
Confirm the following by ed…
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Dear Juan Pablo,
I got this error while running the function:
```
EventPointer_IGV(Events = Events [ grep ("NRG3", Events$`Gene name`, fixed=TRUE),,drop=FALSE],
+ input = "Af…
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From: bart.rossel@
Full_Name: Bart
Version: 1.7.1
OS: XP
Submission from: (NULL) (150.203.41.62)
When trying to load microarray slides (gpr format) into R 1.7.1, I get the
following error message
E…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/bhklab/PDATK
Confirm the following by editing eac…
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### Context
Metadata labels for features such as sex are missing from much of the data. Often researchers want to query for studies that contain mixed sex samples, or look at the sex breakdown, and…