Showing : DEP • reset
1
vote
2
replies
246
views
Error running run_app('LFQ')
LFQ DEPpackage run_app('LFQ') ShinyApps DEP
updated 9 weeks ago by ▴ 180 • written 3 months ago by ▴ 10
0
votes
0
replies
209
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
5 months ago aymanreffai • 0
0
votes
1
reply
217
views
How to extract proteins from PCs in plot_pca in DEP package
DEP PrincipalComponent PCA plot_pca
updated 6 months ago by ▴ 720 • written 6 months ago by • 0
0
votes
2
replies
317
views
Error message trying to open downloaded package
error DEP
7 months ago kcpaul168 • 0
0
votes
1
reply
366
views
Issue installing DEP package
DEP
updated 13 months ago by 3.5k • written 13 months ago by • 0
0
votes
7
replies
2.6k
views
LFQ shiny app from DEP package reports: Error: 'imputeMethods' is not an exported object from 'namespace:MSnbase'
MSnbase MsCoreUtils DEP
updated 13 months ago by ★ 1.6k • written 18 months ago by ▴ 40
0
votes
0
replies
596
views
Introduction to DEP - data imputation
DEP impute
2.0 years ago catherine.li • 0
0
votes
0
replies
599
views
How to handle the imputation and normalisation?
Proteomics DEP limma
2.1 years ago barrypraveen • 0
0
votes
1
reply
612
views
Gene ontology of differentially expressed genes in R
topGO limma DEP
updated 2.1 years ago by 63k • written 2.1 years ago by • 0
0
votes
1
reply
805
views
How to remove batch effect on DEP protemics package?
Proteomics DEP MassSpectrometryData
updated 2.2 years ago by • 0 • written 2.2 years ago by • 0
0
votes
0
replies
1.3k
views
what is the difference between iBAQ or LFQ?
Proteomics DEP limma
written 2.2 years ago by • 0
0
votes
0
replies
569
views
How to obtain log2 intensity per sample in DEP?
DEP
2.3 years ago hele7 ▴ 20
1
vote
3
replies
1.1k
views
Error installing DEP in Rstudio on MacBook
DEP
updated 2.4 years ago by ▴ 720 • written 2.4 years ago by • 0
0
votes
1
reply
789
views
Duplicate row.names when building SummarizedExperiment with make_se in DEP
DEP
updated 6 months ago by • 0 • written 2.4 years ago by ▴ 20
1
vote
7
replies
2.5k
views
How can I convert the "Majority protein IDs" to "Gene names" (example below shown)?
MassSpectrometryData Proteome Database DEP
2.5 years ago tpm • 0
1
vote
4
replies
1.2k
views
Failing to install DEP package. Some strange error.
R Bioconductor Install DEP
2.5 years ago tpm • 0
0
votes
4
replies
827
views
DEP - Run filter_missval() with a threshold ranging from 0 to 3
proteomics DEP
2.5 years ago rina ▴ 20
0
votes
3
replies
3.7k
views
GMM/DEP Package lib/libgomp.1.dylib: mach-o, but wrong architecture
ProblemloadingDEP/GMMpackageinRStudio DEP
updated 2.5 years ago by • 0 • written 2.7 years ago by • 0
7
votes
2
replies
1.5k
views
False discovery rates in DEP
p-value FDR DEP
updated 2.2 years ago by ▴ 490 • written 2.8 years ago by ▴ 60
0
votes
1
reply
601
views
I am using the DEP package example dataset, and I am getting this error on: plot_frequency(data_se)
DEP R Bioconductor Plot
updated 2.8 years ago by 3.5k • written 2.8 years ago by • 0
3
votes
3
replies
704
views
se does not inherit from class SummarizedExperiment
DEP
2.9 years ago yueli7 ▴ 20
0
votes
0
replies
464
views
Which package I can use?
MSnbase DAPAR DEP
2.9 years ago yueli7 ▴ 20
1
vote
1
reply
661
views
Using DEP package with continuous variable for condition, rather than categorical in SummarizedExperiment object
dep
updated 3.0 years ago by ▴ 490 • written 3.0 years ago by ▴ 10
3
votes
7
replies
3.1k
views
Error when loading DEP in RStudio
dep
updated 2.6 years ago by ▴ 10 • written 3.0 years ago by ▴ 20
1
vote
6
replies
2.8k
views
DEP package: Problems installing on macOS
software error DEP proteomics
updated 3.2 years ago by 1.6k • written 3.2 years ago by • 0
0
votes
1
reply
541
views
Error in generating heatmap
dep
updated 3.3 years ago by 3.8k • written 3.3 years ago by • 0
1
vote
2
replies
1.5k
views
Proteomics: package/statistics to compare very different LFQ-proteomes
dep proteomics limma
3.7 years ago Rob • 0
0
votes
0
replies
607
views
DEP package - Understanding the results table
dep proteomics logFC
3.9 years ago rina ▴ 20
0
votes
0
replies
750
views
DEP: TMT analysis from MaxQuant output
DEP TMT proteomics
4.0 years ago dparrine • 0
0
votes
0
replies
759
views
Proteomics data analysis with DEP no replicates
DEP Proteomics Statistics limma
4.1 years ago tatabox • 0
2
votes
3
replies
1.0k
views
DEP package: error in plot_heatmap
DEP
updated 4.1 years ago by ▴ 70 • written 4.1 years ago by • 0
2
votes
8
replies
1.5k
views
Error: se does not inherit from class SummarizedExperiment
DEP SummarizedExperiment
4.1 years ago Wuschel ▴ 10
3
votes
3
replies
883
views
Clarification of results tables in DEP
DEP proteomics
updated 4.1 years ago by ▴ 70 • written 4.2 years ago by ▴ 490
1
vote
1
reply
605
views
DEP p.val adjustment
DEP P.vals adjustment
updated 4.4 years ago by 63k • written 4.4 years ago by ▴ 10
2
votes
3
replies
1.7k
views
Imputation method selection (mass spectrometry) bimodal distribution
impute missing value imputation DEP massspectrometry
updated 5.8 years ago by 1.6k • written 5.8 years ago by ▴ 60
3
votes
2
replies
1.2k
views
DEP: Grouping Samples for missing value imputation
DEP missing value imputation proteomics rforproteomics
5.8 years ago • updated 5.6 years ago alex.gos90 ▴ 10
36 results • Page 1 of 1
Recent ...
Replies
Comment: Doubts regarding Pathview by loyedbend2811 • 0
I thoroughly enjoyed reading your essay, and it was quite beneficial to me. Please join me in [monopoly online][1] if you have the time. …
Comment: ukb Chromosomal position information was converted into SNPS by wenbo • 0
Hi, I downloaded uk biobank data, but I don't know how to use R to convert chromosome position information to rs
Comment: Technical Replicates in HTqPCR by loyedbend2811 • 0
I haven't found the error yet, I don't know where I went wrong. It looks exactly like the code I used to create the game [geometry dash unb…
Comment: Combining and using 10x Genomics output in SingleCellExperiment Objects by loyed • 0
Differences in annotation between your objects, in any case, indicate that the data were created in distinct studies [geometry dash lite][…
Comment: Timely differentially expressed genes by Gordon Smyth 48k
You mean maximum logFC between any pair of times? Yes, you could do that. I do not generally recommend ad hoc cutoffs like that however. Us…
Votes
Answer: MDS plot edgeR
A: legend with gradient in ComplexHeatmap
Comment: comparing contrasts in edger/lima using makeContrasts function
Answer: comparing contrasts in edger/lima using makeContrasts function
Answer: Differential expression analysis with only FPKM matrix available from total newb
Awards • All
Popular Question to Levi Waldron 1.1k
Popular Question to Lucas Schiffer ▴ 240
Popular Question to Ed Siefker ▴ 230
Popular Question to James W. MacDonald 63k
Scholar to keegan ▴ 60
Locations • All
Portugal, 1 minute ago
Germany, 3 minutes ago
WEHI, Melbourne, Australia, 7 minutes ago
Germany, 33 minutes ago
Republic of Ireland, 36 minutes ago
Traffic: 817 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6