User: noorpratap.singh
noorpratap.singh • 300
- Reputation:
- 300
- Status:
- Trusted
- Location:
- University of Maryland
- Website:
- https://github.com/NPSDC
- Last seen:
- 2 days, 10 hours ago
- Joined:
- 4 years, 4 months ago
- Email:
- n*********@gmail.com
I am in my first year of PhD in Computer Science at University of Maryland.
Posts by noorpratap.singh
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... A possible way would be to do an exploratory data analysis. Do a PCA by using certain top N genes and plot the samples labelled by cell line. If you see cell lines appearing together then there is a batch effect definitely. However, the reverse might not be true. ...
written 12 weeks ago by
noorpratap.singh • 300
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310
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Comment:
C: GSK Data Strategy & Design Expert
... Thanks a lot for the reply. ...
written 9 months ago by
noorpratap.singh • 300
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0
answers
310
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answers
Comment:
C: GSK Data Strategy & Design Expert
... Are there any internship opportunities available? ...
written 9 months ago by
noorpratap.singh • 300
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3
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351
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3
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... do the following:
g_marker <- list()
for (i in 0:12) {
g_marker[[i]] <- FindConservedMarkers(immune.combined, ident.1 = i,
grouping.var = "stim", verbose = FALSE)
} ...
written 9 months ago by
noorpratap.singh • 300
1
vote
3
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351
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... The error is happening is because of **g[i].marker**. Are you sure there exists a variable/list as **g**.
Assuming it exists, g[i] would point to an appropriate element (only for a vector, if g is a list then g[[i]] has to be used). The "." following creates the error. Unlike other languages, R is ...
written 9 months ago by
noorpratap.singh • 300
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577
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... Are there any remote internship opportunities that are available? ...
written 19 months ago by
noorpratap.singh • 300
0
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1
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464
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1
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... The folder you mention, does it contain all the files listed by query. To see the total files by query use the following:
`nrow(query$results[[1]])`
Compare with the total downloaded files in your folder.
Further could you send me the exact query you used as it would be then easier to troubleshoo ...
written 19 months ago by
noorpratap.singh • 300
0
votes
1
answer
464
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1
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... In the following command replace "GDCdata" with the local folder name.
`GDCprepare_clinic(query, directory = "GDCdata")` ...
written 19 months ago by
noorpratap.singh • 300
0
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0
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518
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... Is the option to work remotely available? ...
written 19 months ago by
noorpratap.singh • 300
2
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1
answer
974
views
1
answers
... I am not familiar with GEO but data should contain probe level information. The genomic locations of the probes can be extracted from Illumina450K annotation given the data has been retrieved by that.[Illumina Manifest][1]. Once you have that then the [paper][2] outlines a method for associating bet ...
written 21 months ago by
noorpratap.singh • 300
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12 months ago,
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For Retrieving data from new data portal of tcga
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For C: RNA-seq Differential Gene Analysis
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For A: Random forest for gene expression
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For A: Random forest for gene expression
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For A: Random forest for gene expression
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For Getting subtypes of cancer from TCGA
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For A: Random forest for gene expression
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23 months ago,
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For A: Random forest for gene expression
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For A: Random forest for gene expression
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For Getting subtypes of cancer from TCGA
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For A: Random forest for gene expression
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2.8 years ago,
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For A: Random forest for gene expression
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For Getting subtypes of cancer from TCGA
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