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XCMS
•
reset
2
votes
13
replies
2.0k
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
4.6 years ago
abrsoule
▴ 30
2
votes
9
replies
2.7k
views
Unexpected total ion count (TIC) with xcms package
xcms
metabolomics
updated 9.0 years ago by
Thomas Lin Pedersen
▴ 70 • written 9.0 years ago by
Johannes Rainer
★ 2.0k
0
votes
9
replies
2.9k
views
Error 'names' attribute must be the same length as the vector xcms
xcms
xcms3
mzxml
5.7 years ago
goh
• 0
5
votes
7
replies
2.3k
views
XCMS obiwarp adjustRtime issue
xcms
obiwarp
adjustrtime
metabolomics
updated 6.5 years ago by
Johannes Rainer
★ 2.0k • written 6.5 years ago by
bhgyu
▴ 30
1
vote
7
replies
2.2k
views
Can XCMS output continuum/profile data to netCDF format?
xcms
convert
protein
updated 7.4 years ago by
Johannes Rainer
★ 2.0k • written 7.4 years ago by
ray.bacala
• 0
0
votes
6
replies
2.0k
views
error when loading mzR
xcms
mzR
xcms
mzR
updated 10.7 years ago by
Steve Lianoglou
★ 13k • written 10.7 years ago by
Guest User
★ 13k
2
votes
6
replies
1.6k
views
xcms centwave roiList error
roiList
xcms
centwave
XIC
updated 4.7 years ago by
Johannes Rainer
★ 2.0k • written 4.7 years ago by
roxana
▴ 10
0
votes
6
replies
2.7k
views
Help Error could not find function xcmsSet
xcms
metabolomics
mzr rcpp
ramp
8.0 years ago
dfrtyu
• 0
0
votes
5
replies
1.9k
views
XCMS for LC-MS
xcms
xcms
updated 10.4 years ago by
Bashar Amer
▴ 20 • written 10.4 years ago by
Guest User
★ 13k
1
vote
5
replies
3.1k
views
'names' attribute [12] must be the same length as the vector [6]
R
xcms
vector
6.5 years ago
bhgyu
▴ 30
0
votes
5
replies
1.2k
views
runInfo returns startTimeStamp -infinity
lcms
mzR
metabolomics
xcms
MSnbase
updated 4.6 years ago by
Laurent Gatto
1.6k • written 4.6 years ago by
pol.soladelossantos
• 0
5
votes
5
replies
1.0k
views
Warning in In chromPeakSpectra: Lazy evaluation queue is not empty, results in NULL object
xcms
Spectra
updated 2.1 years ago by
Johannes Rainer
★ 2.0k • written 2.1 years ago by
e.terlova
▴ 20
1
vote
4
replies
2.2k
views
How to get from xcmsRaw to a xcmsSet
xcms
metabolomics
updated 9.0 years ago by
Thomas Lin Pedersen
▴ 70 • written 9.0 years ago by
Johannes Rainer
★ 2.0k
0
votes
4
replies
1.8k
views
Chromatographic peak detection failed for all files
xcms
5.8 years ago
yuchiu
• 0
2
votes
4
replies
1.2k
views
Using massifquant for peak detection of generic matrix data?
xcms
kalman
centwave
yamss
6.1 years ago
james.dalgleish
▴ 30
0
votes
4
replies
1.4k
views
Error with xcms - requiring MSnbase 2.15.3 but not installing
software error
xcms
MSnbase
updated 3.7 years ago by
Laurent Gatto
1.6k • written 3.7 years ago by
kramerl
• 0
0
votes
4
replies
14k
views
hclust(d, method = method) : NA/NaN/Inf in foreign function call (arg 10)
R
pheatmap
xcms
updated 20 months ago by
James W. MacDonald
65k • written 2.7 years ago by
onokaisaac
• 0
0
votes
4
replies
1.3k
views
Intensity discrepancy between raw data and XCMS output
xcms
xcmsset
intensity
5.6 years ago
cpataki
• 0
0
votes
4
replies
2.8k
views
mzR could not be loaded on XCMS
xcms
msdata
mzR
Rcpp
metabolomics
8.3 years ago
Titan
• 0
0
votes
4
replies
2.8k
views
XCMS for targeted metabolomic/lipidomics/proteomics
xcms
metabolomics
lipidomics
statistics
8.3 years ago
Titan
• 0
0
votes
4
replies
2.3k
views
Segfault error when loading xcms and mzR packages
software error
mzr
xcms
8.1 years ago
pmartin
• 0
1
vote
4
replies
1.4k
views
xcmsRaw not reading data files in: invalid class “xcmsFileSource” object
xcms
updated 21 months ago by
jiahui
• 0 • written 3.5 years ago by
garfield320
▴ 30
0
votes
4
replies
2.8k
views
Error when loading MSnbase package "object 'vI' not found"
msnbase
xcms
pheatmap
5.1 years ago
lmg
• 0
0
votes
3
replies
1.1k
views
Use xcms but mzR occurs error
software error
xcms
updated 3.7 years ago by
Kevin Blighe
★ 3.9k • written 3.7 years ago by
1227450726
• 0
0
votes
3
replies
2.4k
views
XCMS / mzR / Rcpp dependency issue
xcms
xcms
updated 11.8 years ago by
Laurent Gatto
1.6k • written 11.8 years ago by
Uwe Schmitt
▴ 30
0
votes
3
replies
3.4k
views
Installation of XCMS / mzR failed
cdf
xcms
BiocInstaller
cdf
xcms
BiocInstaller
updated 11.7 years ago by
James W. MacDonald
65k • written 11.7 years ago by
Johannes Raffler
▴ 20
0
votes
3
replies
2.4k
views
XCMS query regarding mzXML
xcms
xcms
updated 10.7 years ago by
Laurent Gatto
1.6k • written 10.7 years ago by
Reema Singh
▴ 570
1
vote
3
replies
1.2k
views
Unable to set colors in plotrt function in xcms package
xcms
bug
9.0 years ago
Johannes Rainer
★ 2.0k
0
votes
3
replies
2.4k
views
Difference between methods getEIC and rawEIC for xcmsRaw classes
xcms
metabolomics
9.0 years ago
Johannes Rainer
★ 2.0k
0
votes
3
replies
3.7k
views
how to import a CDF file in R ?
xcms
metaMS
MSeasy
r
updated 8.6 years ago by
peer.karmaus
• 0 • written 8.6 years ago by
Nemo
▴ 80
0
votes
3
replies
2.1k
views
Problem with XCMS
xcms
metabolomics
lipidomics
proteomics
massspectrometry
8.3 years ago
Titan
• 0
1
vote
3
replies
2.5k
views
XCMS2 on MSMS data
xcms
metabolomics
massspectrometry
lipidomics
bioconductor
8.3 years ago
Titan
• 0
0
votes
3
replies
1.4k
views
Merging and Aligning LC-MS/MS Data With XCMS (multiple scan ranges/polarities)
XCMS
LC-MS
LC-MS/MS
Alignment
updated 4.0 years ago by
Johannes Rainer
★ 2.0k • written 4.0 years ago by
ljveillon
• 0
1
vote
3
replies
972
views
Inconsistent peak areas ('into') with Matched Filter Param
xcms
updated 3.4 years ago by
Johannes Rainer
★ 2.0k • written 3.4 years ago by
Yuki
▴ 10
0
votes
3
replies
1.3k
views
Warning messages during intallation of XCMS
xcms
Install
updated 2.1 years ago by
James W. MacDonald
65k • written 2.2 years ago by
Fanny-shufan
• 0
0
votes
2
replies
1.2k
views
Error: BiocParallel errors
xcms
msdata
BiocParallel
7 months ago
mavamay
• 0
0
votes
2
replies
1.4k
views
get LCMS masses with more significant figures with xcmsRaw()
R
xcms
xcmsRaw
LC
updated 8.8 years ago by
Johannes Rainer
★ 2.0k • written 8.8 years ago by
phoenix
• 0
0
votes
2
replies
1.3k
views
colMax is not exported from the xcms package
xcms
2.9 years ago
Habil Zare
▴ 200
1
vote
2
replies
2.9k
views
ReadMSData problem with xcms
xcms
readmsdata
updated 6.4 years ago by
Johannes Rainer
★ 2.0k • written 6.4 years ago by
bhgyu
▴ 30
1
vote
2
replies
1.1k
views
Baseline correction for GC-MS data
XCMS
metaMS
updated 3.9 years ago by
ron.wehrens
▴ 20 • written 3.9 years ago by
julien.kermorvant
▴ 30
3
votes
2
replies
818
views
How to get MS spectrum from features extracted with findChromPeaks ?
xcms
updated 3.8 years ago by
Johannes Rainer
★ 2.0k • written 3.8 years ago by
julien.kermorvant
▴ 30
0
votes
2
replies
1.2k
views
Problem with mzR and/or Rcpp?
mzr rcpp
mzr
rcpp
XCMS
updated 6.8 years ago by
Laurent Gatto
1.6k • written 6.8 years ago by
elabiead
• 0
0
votes
1
reply
1.6k
views
metaMS for analysis of GC-MS data
metaMS
xcms
GC-MS
metabolomics
volatile organic compounds
updated 7.9 years ago by
ron.wehrens
▴ 20 • written 7.9 years ago by
lucie.conchou
• 0
2
votes
1
reply
1.1k
views
mzR unable to open uncorrupted mzXML file
software error
mzR
xcms
5.1 years ago
abrsoule
▴ 30
0
votes
1
reply
1.2k
views
XCMS - cannot allocate vector of size **Gb when global environment is empty
r
xcms
4.7 years ago
garfield320
▴ 30
2
votes
1
reply
2.1k
views
Can XCMS search Metlin using MS/MS spectra and provide a similarity score?
xcms
updated 6.8 years ago by
wssdandan2009
• 0 • written 8.2 years ago by
dannel025
▴ 20
0
votes
1
reply
1.7k
views
problems installing xcms package
cdf
xcms
cdf
xcms
updated 12.1 years ago by
Dan Tenenbaum
★ 8.2k • written 12.1 years ago by
Juliet Hannah
▴ 360
0
votes
1
reply
930
views
Too many open files error with groupName = "all" in biocLite() call on Apple OS X
Cancer
Breast
Biobase
AnnBuilder
xcms
Cancer
Breast
Biobase
AnnBuilder
xcms
updated 17.8 years ago by
Seth Falcon
★ 7.4k • written 17.8 years ago by
Steven McKinney
▴ 310
1
vote
1
reply
1.2k
views
xcms warning message
R
xcms
warning message
updated 7.4 years ago by
Johannes Rainer
★ 2.0k • written 7.4 years ago by
deepalikale2007
• 0
0
votes
1
reply
993
views
help
cdf
xcms
BiocInstaller
cdf
xcms
BiocInstaller
updated 12.3 years ago by
Steve Lianoglou
★ 13k • written 12.3 years ago by
Guest User
★ 13k
50 results • Page
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Comment: Reproducibility issue with scran together with lapply and BiocParallel
by
ATpoint
★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Answer: Reproducibility issue with scran together with lapply and BiocParallel
by
Aaron Lun
★ 28k
IIRC **BiocParallel** switches to a different RNG when inside its own functions like `bplapply` - specifically L'Ecuyer-CMRG, as opposed to…
Comment: DESeq2 output used for PCA plot on R studio
by
swbarnes2
★ 1.3k
This looks terrible for RNASeq data, because it's not RNASeq data. It's a matrix of pretty random numbers, which you know because you poste…
Comment: DESeq2 output used for PCA plot on R studio
by
Aaliya
• 0
I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…
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