Showing : MSnbase • reset
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News: Online course: Mass Spectrometry and Proteomics with R/Bioconductor
MSnbase
6 months ago info ▴ 10
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0
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530
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Problem with "too large halfWindowSize" with writeMSdata after centroiding MSe data
MSnbase
19 months ago christine.wegler • 0
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2
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1.2k
views
Error loading package MSnbase on MacOS
MSnbase
updated 21 months ago by 1.6k • written 21 months ago by • 0
0
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3
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1.2k
views
TMT 10 plex impurity corrections
MSnbase
updated 2.5 years ago by 1.6k • written 2.5 years ago by • 0
0
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7
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4.0k
views
LFQ shiny app from DEP package reports: Error: 'imputeMethods' is not an exported object from 'namespace:MSnbase'
MSnbase MsCoreUtils DEP
updated 2.1 years ago by ★ 1.6k • written 2.5 years ago by ▴ 40
0
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1
reply
1.7k
views
Installation problem
MSnbase
updated 2.7 years ago by 1.6k • written 2.7 years ago by • 0
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1
reply
839
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Problem in ion intensity
MSnbase
updated 2.7 years ago by 1.6k • written 2.7 years ago by • 0
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1
reply
980
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possible problem with mzR? cannot load Msnset for proteomics analysis
MSnbase mzR Bioconductor limma
updated 3.5 years ago by 1.6k • written 3.5 years ago by • 0
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0
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750
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Which package I can use?
MSnbase DAPAR DEP
3.8 years ago yueli7 ▴ 20
1
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1
reply
959
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Missing SCANS in writeMgfData
MSnbase
updated 3.8 years ago by 1.6k • written 3.8 years ago by ▴ 40
0
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4
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1.6k
views
Error with xcms - requiring MSnbase 2.15.3 but not installing
software error xcms MSnbase
updated 4.0 years ago by 1.6k • written 4.1 years ago by • 0
3
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2
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933
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readMSData and netCDF files, only TIC intensity available
MSnbase netCDF
4.3 years ago julien.kermorvant ▴ 30
8
votes
7
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2.4k
views
readMSData and netCDF files, how to set polarity ?
MSnbase
updated 4.3 years ago by ★ 2.1k • written 4.3 years ago by ▴ 30
2
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1
reply
1.1k
views
Maximum parsimony protein assembly/inference
rforproteomics proteomics msnid msnbase
4.4 years ago daniel.magnus.bader ▴ 50
3
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4
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1.1k
views
Ion Mass to Charge Search R Function with MSnbase, Data frame as mass to charge input help
MSnbase plyr
updated 4.6 years ago by 1.6k • written 4.6 years ago by ▴ 10
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5
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1.4k
views
runInfo returns startTimeStamp -infinity
lcms mzR metabolomics xcms MSnbase
updated 5.0 years ago by 1.6k • written 5.0 years ago by • 0
0
votes
8
replies
3.6k
views
Getting data into (and out of) the MSnSet object
proteomics MSnbase MSnSet readMSnSet msmsTests
updated 5.1 years ago by • 0 • written 6.6 years ago by ▴ 20
4
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4
replies
1.3k
views
Extracting Data from MSn experiment data ("OnDiskMSnExp")
MSnbase
updated 5.1 years ago by 1.6k • written 5.1 years ago by ▴ 20
3
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2
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1.0k
views
Access list of rtime/intensity values from chromatograms object from MSnbase
MSnbase chromatograms intensity
updated 5.1 years ago by 1.6k • written 5.1 years ago by ▴ 10
0
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5
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1.3k
views
MSnbase addIdentificationData problem
software error MSnbase
updated 5.2 years ago by 1.6k • written 5.2 years ago by • 0
2
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3
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1.0k
views
MSnbase extracting individual spectrum based on precursor ion m/z
MSnbase
updated 5.2 years ago by 1.6k • written 5.2 years ago by ▴ 30
0
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4
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3.0k
views
Error when loading MSnbase package "object 'vI' not found"
msnbase xcms pheatmap
5.5 years ago lmg • 0
0
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6
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2.0k
views
Protein quantification by MSnbase package
msnbase rforproteomics
5.6 years ago • updated 5.5 years ago fgol ▴ 10
4
votes
5
replies
2.2k
views
How to convert a xlsx data file to MSnSet format?
msnbase msmstests proteomics lc-ms/ms msnID
updated 5.6 years ago by 1.6k • written 5.6 years ago by ▴ 10
0
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5
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2.0k
views
MSnbase package, Error in downloading data file "PXD000001" from PRIDE Repository by pxget function
MSnbase Bioconductor PRIDE rpx PXDataset
updated 2.3 years ago by 1.6k • written 5.6 years ago by ▴ 10
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4
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1.3k
views
MSnset combine error message
MSnbase
5.6 years ago kamal.fartiyal84 ▴ 10
0
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5
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4.1k
views
Errors installing RforProteomics and MSnbase packages
RforProteomics MSnbase
updated 5.6 years ago by 1.6k • written 5.6 years ago by ▴ 10
3
votes
2
replies
1.3k
views
MSnbase annotate m/z values on mass spectrum plots
msnbase
updated 5.7 years ago by 1.6k • written 5.7 years ago by ▴ 30
1
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2
replies
1.1k
views
quantify() method for MSnExp to MSnSet for MS1 level data only
msnbase spectrum
updated 6.0 years ago by 1.6k • written 6.0 years ago by • 0
3
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1
reply
1.1k
views
Does OnDiskMSnExp rewrite original data
xcms msnbase ondiskmsnexp
updated 6.1 years ago by 1.6k • written 6.1 years ago by • 0
1
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2
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1.6k
views
Label free quantification post FDR calculation for MS/MS Proteomics
mzid msnbase mzr
updated 6.3 years ago by 1.6k • written 6.3 years ago by ▴ 10
0
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2
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1.2k
views
How to manipulate assayData in MSnSetList
msnbase
6.4 years ago kamal.fartiyal84 ▴ 10
2
votes
4
replies
1.6k
views
calling combineFeatures twice causes duplicate row.names
msnbase duplicate rforproteomics
updated 6.6 years ago by 1.6k • written 6.6 years ago by ▴ 10
0
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6
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2.2k
views
Combining two MSnSet
msnbase
7.0 years ago • updated 6.6 years ago kamal.fartiyal84 ▴ 10
0
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1
reply
1.0k
views
Adding Identification Data to MSnbase MSn Experiment
MSnbase
6.9 years ago lau1 • 0
0
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4
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2.1k
views
Missing value imputation
msnbase
7.1 years ago kamal.fartiyal84 ▴ 10
0
votes
14
replies
2.7k
views
Pbase: AddIdentificationData. How can I use MSnId objects (filtered psm) to build the Proteins database
pbase MsnId mzid msnbase
updated 8.5 years ago by ▴ 80 • written 8.6 years ago by • 0
0
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2
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4.6k
views
Error: package or namespace load failed for ‘MSnbase’
MSnbase
updated 8.5 years ago by 1.6k • written 8.5 years ago by • 0
4
votes
15
replies
3.3k
views
Converting Synapter object output into a MSnbase-compatible object
synapter msnbase
9.1 years ago • updated 9.0 years ago diana.schreier • 0
1
vote
9
replies
2.7k
views
msnbase error when adding identification data
msnbase proteomics itraq
updated 9.7 years ago by 1.6k • written 9.7 years ago by • 0
40 results • Page 1 of 1
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Comment: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic by Michael Love 42k
I request the post here, so not a problem.
Comment: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic by micolak0115 • 0
Thanks for the advice Michael. I will try this with my future test datasets.
Comment: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic by micolak0115 • 0
Hi James, I will try to leave only relevant questions on bioconductor forum hereinafter. Thanks for the note. Cheers, Alan
Comment: SingleR Label.Ont by Stepah • 0
[Aussie Play][1] cares about its Australian players by offering a safe and secure gaming experience where there is never a dull moment. The…
Comment: ensemblVEP deprecation and how to reproduce by Vincent J. Carey, Jr. 6.7k
What aspect of ensemblVEP are you looking for? The vignette https://bioconductor.org/packages/release/bioc/vignettes/VariantAnnotation/in…
Votes
DEXseq: How to do differential exon usage of genes with overlapping exons
A: Moderated F-test followed by moderated t-test in limma
Answer: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic
Answer: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic
Answer: [DESeq2] Normalization of External Test Dataset for Machine Learning (ML) Applic
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