Showing : dep • reset
0
votes
3
replies
573
views
DEP R-package run_app ("TMT") spits this error: "Error: 'imputeMethods' is not an exported object from 'namespace:MSnbase'".
DEP
5 months ago • updated 4 months ago Shajahan • 0
0
votes
0
replies
465
views
Warning while loading DEP package
DEP
updated 20 months ago by 4.2k • written 20 months ago by • 0
0
votes
3
replies
1.2k
views
Differential enrichment analysis
limma Differentialenrichmentanalysis DEP
updated 22 months ago by 53k • written 22 months ago by • 0
1
vote
2
replies
1.3k
views
Error running run_app('LFQ')
LFQ DEPpackage run_app('LFQ') ShinyApps DEP
updated 2.5 years ago by ▴ 220 • written 2.5 years ago by ▴ 10
0
votes
0
replies
955
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
2.7 years ago aymanreffai • 0
0
votes
1
reply
999
views
How to extract proteins from PCs in plot_pca in DEP package
DEP PrincipalComponent PCA plot_pca
updated 2.8 years ago by ▴ 780 • written 2.8 years ago by • 0
0
votes
2
replies
1.1k
views
Error message trying to open downloaded package
error DEP
2.9 years ago kcpaul168 • 0
0
votes
1
reply
1.1k
views
Issue installing DEP package
DEP
updated 3.4 years ago by 4.2k • written 3.4 years ago by • 0
0
votes
7
replies
6.0k
views
LFQ shiny app from DEP package reports: Error: 'imputeMethods' is not an exported object from 'namespace:MSnbase'
MSnbase MsCoreUtils DEP
updated 3.4 years ago by ★ 1.6k • written 3.8 years ago by ▴ 40
0
votes
0
replies
1.3k
views
Introduction to DEP - data imputation
DEP impute
4.3 years ago catherine.li • 0
0
votes
0
replies
1.7k
views
How to handle the imputation and normalisation?
Proteomics DEP limma
4.4 years ago barrypraveen • 0
0
votes
1
reply
1.3k
views
Gene ontology of differentially expressed genes in R
topGO limma DEP
updated 4.4 years ago by 68k • written 4.4 years ago by • 0
0
votes
1
reply
1.9k
views
How to remove batch effect on DEP protemics package?
Proteomics DEP MassSpectrometryData
updated 4.5 years ago by • 0 • written 4.5 years ago by • 0
0
votes
0
replies
2.8k
views
what is the difference between iBAQ or LFQ?
Proteomics DEP limma
written 4.5 years ago by • 0
0
votes
0
replies
1.4k
views
How to obtain log2 intensity per sample in DEP?
DEP
4.6 years ago hele7 ▴ 20
1
vote
3
replies
1.9k
views
Error installing DEP in Rstudio on MacBook
DEP
updated 4.7 years ago by ▴ 780 • written 4.7 years ago by • 0
0
votes
2
replies
2.0k
views
Duplicate row.names when building SummarizedExperiment with make_se in DEP
DEP
updated 14 months ago by • 0 • written 4.7 years ago by ▴ 20
0
votes
3
replies
5.1k
views
GMM/DEP Package lib/libgomp.1.dylib: mach-o, but wrong architecture
ProblemloadingDEP/GMMpackageinRStudio DEP
updated 4.8 years ago by • 0 • written 5.0 years ago by • 0
1
vote
7
replies
4.3k
views
How can I convert the "Majority protein IDs" to "Gene names" (example below shown)?
MassSpectrometryData Proteome Database DEP
4.8 years ago tpm • 0
1
vote
4
replies
2.3k
views
Failing to install DEP package. Some strange error.
R Bioconductor Install DEP
4.8 years ago tpm • 0
0
votes
4
replies
1.7k
views
DEP - Run filter_missval() with a threshold ranging from 0 to 3
proteomics DEP
4.8 years ago rina ▴ 30
3
votes
7
replies
4.4k
views
Error when loading DEP in RStudio
dep
updated 4.9 years ago by ▴ 10 • written 5.3 years ago by ▴ 20
7
votes
2
replies
3.0k
views
False discovery rates in DEP
p-value FDR DEP
updated 4.5 years ago by ▴ 510 • written 5.1 years ago by ▴ 60
0
votes
1
reply
1.2k
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 5.1 years ago by 4.2k • written 5.1 years ago by • 0
3
votes
3
replies
1.6k
views
se does not inherit from class SummarizedExperiment
DEP
5.1 years ago yueli7 ▴ 20
0
votes
0
replies
1.0k
views
Which package I can use?
MSnbase DAPAR DEP
5.1 years ago yueli7 ▴ 20
1
vote
1
reply
1.4k
views
Using DEP package with continuous variable for condition, rather than categorical in SummarizedExperiment object
dep
updated 5.2 years ago by ▴ 510 • written 5.2 years ago by ▴ 10
1
vote
6
replies
4.2k
views
DEP package: Problems installing on macOS
software error DEP proteomics
updated 5.4 years ago by 1.6k • written 5.4 years ago by • 0
0
votes
1
reply
1.2k
views
Error in generating heatmap
dep
updated 5.6 years ago by ★ 4.0k • written 5.6 years ago by • 0
1
vote
2
replies
2.6k
views
Proteomics: package/statistics to compare very different LFQ-proteomes
dep proteomics limma
6.0 years ago Rob • 0
0
votes
0
replies
1.2k
views
DEP package - Understanding the results table
dep proteomics logFC
6.2 years ago rina ▴ 30
0
votes
0
replies
1.5k
views
DEP: TMT analysis from MaxQuant output
DEP TMT proteomics
6.3 years ago dparrine • 0
0
votes
0
replies
1.4k
views
Proteomics data analysis with DEP no replicates
DEP Proteomics Statistics limma
6.4 years ago tatabox • 0
2
votes
3
replies
1.9k
views
DEP package: error in plot_heatmap
DEP
updated 6.4 years ago by ▴ 70 • written 6.4 years ago by • 0
3
votes
3
replies
1.7k
views
Clarification of results tables in DEP
DEP proteomics
updated 6.4 years ago by ▴ 70 • written 6.5 years ago by ▴ 510
2
votes
8
replies
3.1k
views
Error: se does not inherit from class SummarizedExperiment
DEP SummarizedExperiment
6.4 years ago Wuschel ▴ 10
1
vote
1
reply
1.3k
views
DEP p.val adjustment
DEP P.vals adjustment
updated 6.7 years ago by 68k • written 6.7 years ago by ▴ 10
3
votes
2
replies
2.4k
views
DEP: Grouping Samples for missing value imputation
DEP missing value imputation proteomics rforproteomics
8.1 years ago • updated 7.9 years ago alex.gos90 ▴ 10
2
votes
3
replies
3.0k
views
Imputation method selection (mass spectrometry) bimodal distribution
impute missing value imputation DEP massspectrometry
updated 8.1 years ago by 1.6k • written 8.1 years ago by ▴ 60
39 results • Page 1 of 1
Recent ...
Replies
Answer: How to install packages such as TCGAbiolinks, SumarizedExperiment? by Gordon Smyth 53k
The warning message is telling you that you already have the packages installed. However, you might consider upgrading to the current vers…
Comment: Guitar R package requires update due to dependency GenomicFeatures by Frank • 0
Created by French developer Julien "Orteil" Thiennot, Cookie Clicker transformed the gaming landscape by introducing a new genre of idle ga…
Comment: Empty boxes in treemap plot rrvgo package by TikTsokaasocissalpc • 0
Clear visualization matters just as much in mobile entertainment as in data analysis. The [Try KK33 Game App now][1] focuses on clean layou…
Comment: nice 3D displays for PCA analysis by adam80haynes • 0
That's a fascinating application of 3D printing in a scientific context. Using this technology to create custom lab equipment, models of mo…
Comment: Bioinformatician at the Lausanne University Hospital by TikTsokaasocissalpc • 0
The Random Word Generator in Italian is a useful tool for generating ideas and exploring new approaches, much like the innovative research …
Votes
A: limma-voom duplicateCorrelation once or twice, difference?
A: limma: comparison of repeat measurements - blocking or within-subject correlatio
Answer: DecideTest vs topTAGs in edgeR
A: LIMMA time series spline model.matrix design setup
Answer: Limma-voom sample weights and impact on DEG numbers
Awards • All
Teacher to Gordon Smyth 53k
Popular Question to shepherl 4.2k
Popular Question to Hervé Pagès 16k
Popular Question to Vincent J. Carey, Jr. 6.7k
Popular Question to Istvan Albert ▴ 50
Locations • All
United States, 30 minutes ago
The city by the bay, 2 hours ago
Barcelona, Spain, 3 hours ago
United States, 4 hours ago
United States, 6 hours ago
Traffic: 1375 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