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XCMS Data Processing
r xcms metabolomi NTA Metabolomics
updated 8 weeks ago by 68k • written 8 weeks ago by • 0
1
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3
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792
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Tutorial regarding metabolomics with R
Bioconductor Metabolomics xcms
updated 4 months ago by 68k • written 4 months ago by • 0
0
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1
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562
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News: Subject: Last 2 Seats Available for Metabolomics with R/Bioconductor Course (October 7-10)
Metabolomics xcms
updated 5 months ago by • 0 • written 5 months ago by ▴ 10
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2
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3.1k
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Error: BiocParallel errors
xcms msdata BiocParallel
18 months ago mavamay • 0
0
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0
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708
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mzTab-M in XCMS
xcms mzTab-M iterativehierarchicalprocessing FBMN
21 months ago Abrianna • 0
0
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1
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755
views
How to get around the warning message: mzR has been built against a different Rcpp version
xcms mzR
updated 23 months ago by ★ 4.7k • written 23 months ago by • 0
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0
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576
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XCMS normalization
xcms
2.1 years ago T.RU • 0
0
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1
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819
views
msPurity::spectralMatching Error in getSmeta(con, pids) : No meta data for spectra available
msPurity Metabolomics Bioconductor xcms spectralMatching
updated 2.1 years ago by • 0 • written 2.4 years ago by ▴ 10
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0
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604
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dont find xcmsSet for peak analysis
xcms
2.4 years ago aline.lafise • 0
1
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4
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1.9k
views
xcmsRaw not reading data files in: invalid class “xcmsFileSource” object
xcms
updated 2.6 years ago by • 0 • written 4.3 years ago by ▴ 30
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0
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874
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xcms crashes R 4.2.0, also unable to install IPO or msdata
IPO msdata xcms
2.9 years ago mba • 0
5
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5
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1.4k
views
Warning in In chromPeakSpectra: Lazy evaluation queue is not empty, results in NULL object
xcms Spectra
updated 2.9 years ago by ★ 2.1k • written 2.9 years ago by ▴ 20
0
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3
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1.8k
views
Warning messages during intallation of XCMS
xcms Install
updated 3.0 years ago by 68k • written 3.0 years ago by • 0
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0
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871
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BiocParallel errors in XCMS peak-picking
BiocParallel xcms biocparallel
3.3 years ago noerman • 0
0
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4
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18k
views
hclust(d, method = method) : NA/NaN/Inf in foreign function call (arg 10)
R pheatmap xcms
updated 2.6 years ago by 68k • written 3.6 years ago by • 0
0
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2
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1.7k
views
colMax is not exported from the xcms package
xcms
3.8 years ago Habil Zare ▴ 200
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0
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922
views
Mass spec intensity difference
xcms
3.9 years ago Phytochem • 0
0
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0
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918
views
Running > 100 samples per group - memory issues
xcms memory findchrompeaks
3.9 years ago abrsoule ▴ 30
0
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0
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1.7k
views
BiocParallel errors with xcms
BiocParallel xcms
4.0 years ago Yuki ▴ 10
1
vote
3
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1.3k
views
Inconsistent peak areas ('into') with Matched Filter Param
xcms
updated 4.3 years ago by ★ 2.1k • written 4.3 years ago by ▴ 10
0
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1
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1.9k
views
convert from profile to centroid.
MassSpectrometry xcms
updated 4.4 years ago by 1.6k • written 4.4 years ago by • 0
0
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3
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1.5k
views
Use xcms but mzR occurs error
software error xcms
updated 4.6 years ago by ★ 4.0k • written 4.6 years ago by • 0
0
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4
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1.9k
views
Error with xcms - requiring MSnbase 2.15.3 but not installing
software error xcms MSnbase
updated 4.6 years ago by 1.6k • written 4.6 years ago by • 0
3
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2
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1.1k
views
How to get MS spectrum from features extracted with findChromPeaks ?
xcms
updated 4.7 years ago by ★ 2.1k • written 4.7 years ago by ▴ 30
1
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2
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1.4k
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Baseline correction for GC-MS data
XCMS metaMS
updated 4.8 years ago by ▴ 20 • written 4.8 years ago by ▴ 30
0
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3
replies
2.1k
views
Merging and Aligning LC-MS/MS Data With XCMS (multiple scan ranges/polarities)
XCMS LC-MS LC-MS/MS Alignment
updated 4.9 years ago by ★ 2.1k • written 4.9 years ago by • 0
2
votes
13
replies
2.6k
views
Found gaps in scan time of file : cut scantime-vector at NA seconds. Error: BiocParallel errors element index: 1, 2, 3, 4, 5, 6 first error: argu…
xcms adjustRtime parameters scantime error biocparallel error
5.5 years ago abrsoule ▴ 30
0
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5
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1.6k
views
runInfo returns startTimeStamp -infinity
lcms mzR metabolomics xcms MSnbase
updated 5.5 years ago by 1.6k • written 5.5 years ago by • 0
2
votes
6
replies
1.9k
views
xcms centwave roiList error
roiList xcms centwave XIC
updated 5.6 years ago by ★ 2.1k • written 5.6 years ago by ▴ 10
0
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1
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1.5k
views
XCMS - cannot allocate vector of size **Gb when global environment is empty
r xcms
5.6 years ago garfield320 ▴ 30
2
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1
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1.5k
views
mzR unable to open uncorrupted mzXML file
software error mzR xcms
6.0 years ago abrsoule ▴ 30
0
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4
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3.2k
views
Error when loading MSnbase package "object 'vI' not found"
msnbase xcms pheatmap
6.0 years ago lmg • 0
0
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0
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1.3k
views
Job: Postdoctoral researcher in Computational Metabolomics
metabolomics xcms Job
6.1 years ago Johannes Rainer ★ 2.1k
0
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0
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1.6k
views
Job: Postdoctoral researcher in Computational Metabolomics
xcms metabolomics population metabolism job Job
updated 6.2 years ago by • 0 • written 6.3 years ago by ★ 2.1k
0
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4
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1.8k
views
Intensity discrepancy between raw data and XCMS output
xcms xcmsset intensity
6.5 years ago cpataki • 0
0
votes
9
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4.0k
views
Error 'names' attribute must be the same length as the vector xcms
xcms xcms3 mzxml
6.6 years ago goh • 0
3
votes
1
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1.2k
views
Does OnDiskMSnExp rewrite original data
xcms msnbase ondiskmsnexp
updated 6.6 years ago by 1.6k • written 6.6 years ago by • 0
0
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1
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1.8k
views
XCMS for GC-MS
xcms GC-MS
6.6 years ago Joe • 0
0
votes
4
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2.4k
views
Chromatographic peak detection failed for all files
xcms
6.7 years ago yuchiu • 0
0
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1
reply
1.8k
views
Metabolite identification package
xcms massspectrometry metabolomics
updated 6.9 years ago by ★ 2.1k • written 6.9 years ago by • 0
2
votes
4
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1.6k
views
Using massifquant for peak detection of generic matrix data?
xcms kalman centwave yamss
7.0 years ago james.dalgleish ▴ 30
1
vote
2
replies
3.5k
views
ReadMSData problem with xcms
xcms readmsdata
updated 7.3 years ago by ★ 2.1k • written 7.3 years ago by ▴ 30
1
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5
replies
3.6k
views
'names' attribute [12] must be the same length as the vector [6]
R xcms vector
7.4 years ago bhgyu ▴ 30
5
votes
7
replies
2.8k
views
XCMS obiwarp adjustRtime issue
xcms obiwarp adjustrtime metabolomics
updated 7.4 years ago by ★ 2.1k • written 7.4 years ago by ▴ 30
2
votes
1
reply
2.4k
views
Can XCMS search Metlin using MS/MS spectra and provide a similarity score?
xcms
updated 7.7 years ago by • 0 • written 9.1 years ago by ▴ 20
0
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2
replies
1.5k
views
Problem with mzR and/or Rcpp?
mzr rcpp mzr rcpp XCMS
updated 7.7 years ago by 1.6k • written 7.7 years ago by • 0
0
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0
replies
1.2k
views
xcmsFragments extract product fragment
xcms xcms2
7.7 years ago riccardo.romoli • 0
1
vote
4
replies
2.1k
views
New to mass spec data analysis
data analysis xcms Tutorial
updated 4 months ago by • 0 • written 8.0 years ago by • 0
1
vote
1
reply
1.5k
views
xcms warning message
R xcms warning message
updated 8.3 years ago by ★ 2.1k • written 8.3 years ago by • 0
0
votes
1
reply
1.5k
views
error when reading .mzML with xcms::xcmsSet
software error R mzR xcms
8.3 years ago buescher • 0
50 results • Page 1 of 1
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Answer: Use of org.Rn.eg.db with GRCr8 reference genome by James W. MacDonald 68k
You've got it backwards. It should be ``` adult_res_df$symbol <- mapIds(org.Rn.eg.db, keys = rownames(adult_res_df), column = "ENSEMBL"…
Comment: DESeq2 swap ensembl gene id rownames with gene symbol column by Erika • 0
Alternatively, you could have added a column with the common gene names. Assuming your dataframe `df` was created using `DESeq()`, somethin…
Answer: Clarification on GOALL / GO2ALLORFs mapping by James W. MacDonald 68k
It appears that 'negative regulation of glycogen biosynthesis' has an 'is a' relationship with 'glycogen biosynthetic process' https://www.…
Comment: Can't post a question? by DavideSant • 0
Thank you, this was super useful!
Comment: Error in retrieving clinical data by silickas • 0
Thank you for the reply. I will try to do that next time. This time instead, I used the GenomicDataCommons package to download clinical dat…
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Comment: Can't post a question?
Answer: Limma - Complex 2-way multi-level contrast with paired samples
Answer: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks
Help with creation of an OrgDB package and conduction of a bioinformatical analysis of gene expression
Answer: Loading Ensembl 98 EnsDb from Annotation Hub fails with database disk image malf
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