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User: fsgolestan
fsgolestan • 10
- Reputation:
- 10
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- New User
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- Last seen:
- 1 day, 11 hours ago
- Joined:
- 1 month ago
- Email:
- f*********@yahoo.ca
Posts by fsgolestan
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0
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3
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56
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... Many thanks for your great help. It is working now and I could also add my phenoData.csv to the final MSnSet file. Thanks a lot. ...
written 1 day ago by
fsgolestan • 10
0
votes
3
answers
56
views
3
answers
... Hello gain,
I need to learn how I can create an MSnSet file from a csv file. So, as an example, I just wrote “msms.spk” expression dataset (from “msmsTests” package) to a csv file as bellow:
library(msmsTests)
data(msms.spk)
write.exprs(msms.spk, file="msms.txt", sep="\t")
Then, I man ...
written 2 days ago by
fsgolestan • 10
• updated
2 days ago by
Laurent Gatto ♦ 1.1k
1
vote
3
answers
56
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3
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... That was great. I could create both files (csv and MSnSet files). Thanks a lot Laurent. ...
written 3 days ago by
fsgolestan • 10
4
votes
3
answers
56
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3
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... Hello,
I have a “xlsx” quantitative dataset from proteome discoverer software (the xlsx matrix file contains rows as identified proteins and columns as different conditions/treatments, and matrix cells corresponds to spectral counts).
I need to convert my xlsx dataset to MSnSet format to be able t ...
written 4 days ago by
fsgolestan • 10
• updated
1 day ago by
Laurent Gatto ♦ 1.1k
0
votes
1
answer
62
views
1
answers
... Dear Laurent,
Thank you very much. You are right, it shows file number 6 is README file. However, still I have the same problem when I try to open file number 7, and also 8.
> px1 <- PXDataset("PXD000001")
> mzf <- pxget(px1, 7)
Downloading 1 file
trying URL 'ftp://ftp.p ...
written 27 days ago by
fsgolestan • 10
• updated
27 days ago by
Laurent Gatto ♦ 1.1k
0
votes
1
answer
62
views
1
answer
... Hello,
I want to download this raw data file "PXD000001" from the PRIDE repository. However I faced with the below Error:
library("MSnbase")
library("rpx")
px1 <- PXDataset("PXD000001")
mzf <- pxget(px1, 6)
Downloading 1 file
trying URL 'ftp://ftp.pride.eb ...
written 27 days ago by
fsgolestan • 10
• updated
27 days ago by
Laurent Gatto ♦ 1.1k
0
votes
2
answers
81
views
2
answers
... Dear SamGG,
Many thanks. Now, they are working fine with BiocManager. Thanks a lot. ...
written 4 weeks ago by
fsgolestan • 10
0
votes
2
answers
81
views
2
answers
... Dear Shepherl,
Thank you so much for your advise. Now, both packages are working.
Thanks ...
written 4 weeks ago by
fsgolestan • 10
0
votes
2
answers
81
views
2
answers
... Hello,
In installing "RforProteomics" package I faced with the below Error:
> source("http://www.bioconductor.org/biocLite.R")
> library("BiocInstaller")
> biocLite("RforProteomics", dependencies = TRUE)
The downloaded source packages are in
‘C:\Users\fsgh1d18\AppData ...
written 4 weeks ago by
fsgolestan • 10
• updated
4 weeks ago by
Laurent Gatto ♦ 1.1k
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