Showing : DESEQ2 • reset
2
votes
7
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2.9k
views
DESeq2 error with lfcshrink for interaction term
deseq2 interaction term
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
1
reply
651
views
Unbalanced experimental design of DESeq2
DESeq2
updated 7.2 years ago by 43k • written 7.2 years ago by ▴ 10
2
votes
1
reply
874
views
DESeq2 generating VST for Single Condition
deseq2
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
1
reply
943
views
Comparisons between populations
deseq2 PlotPCA draw.triple.venn
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
1
reply
972
views
PCA analysis of 2/3 samples out of a 8 sample countmatrix
deseq2 plotpca
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
7
replies
2.2k
views
DESeq2: Sequencing depth as confounding factor after size factor normalization
deseq2 sizefactors pca normalization library size factor
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
3
votes
3
replies
1.6k
views
DESeq2: maxCooks not set (NA)
deseq2 cooks distance dds
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
1
reply
994
views
question about DESeq2: getVarianceStabilizedData
deseq2 software error
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
1
vote
4
replies
2.1k
views
DESeq2 design model that considers 3 factors
deseq2 multiple factor design
updated 7.2 years ago by 43k • written 7.2 years ago by ▴ 10
1
vote
12
replies
2.7k
views
High amount of zeros in DESeq2 RNAseq analysis
deseq2
7.2 years ago user6 • 0
2
votes
2
replies
2.6k
views
One-sided p-value from DESeq2
DESeq2 nbinomWaldTest one-sided p-value
updated 7.2 years ago by 43k • written 7.2 years ago by ▴ 170
0
votes
4
replies
1.3k
views
DESeq2 - order of covariates in the design
deseq2
updated 7.2 years ago by 43k • written 7.2 years ago by ▴ 190
1
vote
8
replies
1.6k
views
DESeq2 DEG analysis 99% overlap among LRT and specific contrasts time course no matching time point controls
deseq2 mikelove
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
1
vote
6
replies
3.0k
views
DESeq2 replicates management
deseq2 bioconductor R
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
3
votes
5
replies
1.8k
views
Help with multi-factor Deseq analysis
deseq2 rnaseq deseq
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
2
votes
7
replies
3.0k
views
Get the countsFromAbundance as limma input
tximport limma deseq2 differential expression
updated 7.2 years ago by 53k • written 7.2 years ago by • 0
0
votes
1
reply
790
views
Inconsistent results from the lfcThreshold argument?
deseq2
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
1
vote
12
replies
1.6k
views
Effectiveness of normalisation if many DE genes using DESeq2
deseq2
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
1
reply
2.4k
views
Problem with writing CollapseReplicates command
DESeq2
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
2
replies
4.3k
views
DESeqDataSetFromMatrix Unavailable for R Version 3.5.0
DESeq2 deseqdatasetfrommatrix r new version
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
0
votes
1
reply
1.3k
views
DESeq2 - is VSD data normalized for covariates in the model
deseq2
updated 7.2 years ago by ★ 3.0k • written 7.2 years ago by ▴ 190
3
votes
1
reply
1.6k
views
DE genes comparison of different treatments from microarray and RNAseq data
microarray deseq2 limma edgeR
updated 7.2 years ago by 68k • written 7.2 years ago by • 0
0
votes
6
replies
4.1k
views
Error in designAndArgChecker(object, betaPrior) : variables in the design formula cannot have NA values
deseq2 featurecounts error message
updated 7.2 years ago by 43k • written 7.2 years ago by • 0
1
vote
4
replies
1.5k
views
How to spot genes/transcripts in a MA-plot
ma-plot deseq2
updated 7.2 years ago by ★ 29k • written 7.2 years ago by • 0
1
vote
11
replies
2.3k
views
Need help with DESeq2's contrast feature
deseq2 michael love
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 10
3
votes
1
reply
1.0k
views
Can limma/other DE algorithms be used for differential analysis of chemical descriptors?
limma edger deseq2 cheminformatics
updated 7.3 years ago by ★ 29k • written 7.3 years ago by • 0
0
votes
1
reply
585
views
DGE between two related species
deseq2
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
0
votes
4
replies
677
views
Problem with low reads count
deseq2
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
0
votes
5
replies
1.1k
views
DESEQ experimental design
deseq2
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
1
vote
3
replies
4.5k
views
some values in assay are not integers
DESeq2 Tax4Fun
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
0
votes
2
replies
1.6k
views
lfcshrink in DESeq2 with grouping variable
deseq2 lfcshrink
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 10
0
votes
2
replies
11k
views
deseq2: convert ensembl ID to gene symbol.
DEXSeq DESeq2 DEXSeq DESeq2
updated 7.3 years ago by • 0 • written 11.3 years ago by ▴ 970
1
vote
5
replies
1.6k
views
Group Specific Condition Query
deseq2 deseq batcheffect
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 10
2
votes
10
replies
5.3k
views
DESeq2 - Differences between plotCounts and normalized counts
deseq2
updated 2.1 years ago by 43k • written 7.3 years ago by ▴ 20
2
votes
2
replies
1.6k
views
Looking for code showing how estimateDispersions works.
estimateDispersions deseq2
updated 7.3 years ago by ★ 1.6k • written 7.3 years ago by • 0
15
votes
12
replies
3.4k
views
ZINB-WaVE + DESeq2 misses low-expressed, single-condition genes that look like they should be markers
deseq2 ZINB-WaVE single cell RNA-seq differential expression
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 60
0
votes
6
replies
2.0k
views
Using DESeq2 for T-cell receptor clonotypes
deseq2 immunology tcr clonotypes
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
1
vote
1
reply
1.6k
views
Time Series Analysis
timecourse deseq2
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 20
0
votes
3
replies
1.5k
views
DESeq2 multifactor design, interpreting interaction names
deseq2 interactions multifactorial design
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
0
votes
1
reply
796
views
DESeq2 with HTSeq DESeqDataSetFromHTSeqCount
deseq2
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
0
votes
2
replies
581
views
For multiple level variables, different results with or without subsetting
deseq2
updated 7.3 years ago by 68k • written 7.3 years ago by ▴ 10
4
votes
7
replies
9.7k
views
DESeq2: likelihood ratio test interpretation, multifactor
likelihood ratio test deseq2 LRT
updated 3.1 years ago by 43k • written 7.3 years ago by ▴ 10
0
votes
1
reply
830
views
Changes in DESeq2 Version 1.20?
deseq2
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
0
votes
4
replies
872
views
Strange results from Deseq2
deseq2
7.3 years ago swbarnes2 ★ 1.4k
0
votes
1
reply
757
views
DESeq2 relevel still gives negative log2FoldChange
deseq2
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 60
2
votes
2
replies
15k
views
Seurat/DESeq2 - single cell RNA-seq differential expression
seurat deseq2
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 10
2
votes
1
reply
838
views
DESeq2 - Three Sample Analysis
deseq2
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
2
votes
4
replies
1.4k
views
DESeq2 on two groups
deseq2 group
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
0
votes
5
replies
2.1k
views
Error DESeq2 plotCounts invalid class DESeqDataSet object undefined class for slot rowRanges GenomicRangesORGRangesList
deseq2 plotCounts rowRanges
updated 7.3 years ago by 43k • written 7.3 years ago by ▴ 50
1
vote
1
reply
781
views
DESeq2 for ChIP-seq
deseq2 diffbind
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
4,839 results • Page 60 of 97
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Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Identifying differentially expressed genes in individual samples from a large co
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