Showing : RnaSeq • reset
1
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3.6k
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DESeq2 effects of treatment at different time points including subject ID
deseq2 rnaseq differential gene expression
10.6 years ago • updated 10.5 years ago Catalina Aguilar Hurtado ▴ 90
5
votes
12
replies
2.9k
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DESeq2 multi-factor comparison problem
deseq2 rnaseq
10.6 years ago Vivek.b ▴ 100
1
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9
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3.7k
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RUV: removing unwanted variation in RNA-seq
RUV ruvseq rnaseq
10.6 years ago sergio.espeso-gil • 0
1
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4
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1.6k
views
Specifically expressed genes
DESeq2 specific expression rnaseq clustering differential expression
updated 10.6 years ago by 43k • written 10.6 years ago by • 0
1
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0
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2.4k
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Job: Postdoctoral Research Fellow in Bioinformatics - Institute of Medical Biostatistics, Epidemiology and Informatics (IMBEI), Mainz, Germany
bioinformatician job rnaseq statistics systemsbiology Job
10.6 years ago Federico Marini ▴ 180
2
votes
2
replies
2.1k
views
Help with cummeRbund
cummeRbund Script analysis RNAseq cuffdiff
updated 10.6 years ago by ▴ 370 • written 10.6 years ago by • 0
0
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0
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1.4k
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Biclustering approach to make transcription modules for rna seq data
rnaseq bicluster trancription modules eisa isa
10.6 years ago dhwani.dholakia • 0
2
votes
2
replies
1.2k
views
factorial linear modeling from DEseq2
deseq2 rnaseq differential gene expression
updated 10.6 years ago by ★ 13k • written 10.6 years ago by • 0
6
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3
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4.0k
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Normalization of RNA-seq data, called remove unwanted variation (RUV), in DESeq2
normalization deseq2 rnaseq
10.6 years ago Silva • 0
0
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6
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3.5k
views
Gene set enrichment analysis with gage package returning NaN p-values
gage gsea rnaseq
updated 10.6 years ago by ★ 1.6k • written 10.6 years ago by • 0
0
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2
replies
1.7k
views
EBSeq package gives NaN Values for EBMultiTest
differential expression ebseq rnaseq
10.6 years ago jbarker2 • 0
0
votes
1
reply
2.0k
views
RNASeq time-course analysis with maSigPro: T.fit error when assessing multiple groups
rnaseq masigpro timecourse
10.6 years ago Ryan Goosen • 0
0
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1
reply
971
views
MA plot error
rnaseq
updated 10.6 years ago by 68k • written 10.6 years ago by • 0
7
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4
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7.9k
views
Low percentage of assigned fragments with FeatureCounts
rsubread featurecounts rnaseq
10.6 years ago beiting ▴ 30
4
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8
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3.4k
views
Can't find any differentially expressed genes
rnaseq differential gene expression design matrix edgeR
updated 10.6 years ago by 53k • written 10.6 years ago by ▴ 10
7
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4
replies
3.3k
views
Gene expression between two copies of same gene:use counts or RPKM or FPKM?
count rnaseq rpkm fpkm edgeR
updated 10.6 years ago by 53k • written 10.6 years ago by ▴ 10
3
votes
7
replies
2.6k
views
Add up RLEs that are in lists?
RLE GenomicFeatures rnaseq
updated 10.6 years ago by 16k • written 10.6 years ago by ▴ 30
0
votes
1
reply
1.8k
views
Nested Comparison using DESeq2
deseq2 rnaseq
updated 10.6 years ago by ★ 7.9k • written 10.6 years ago by ▴ 60
0
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4
replies
17k
views
3D PCA Plot of RNA-seq Data using plotPCA from within DESeq2
deseq2 rnaseq PCA
updated 10.6 years ago by 43k • written 10.6 years ago by ▴ 60
0
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3
replies
2.6k
views
How to analyze a known fusion gene expression in RNAseq
fusion genes rnaseq
10.6 years ago stephen66 ▴ 50
0
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2
replies
1.9k
views
Assessing RNA-Seq sample replicates
RNASeq
updated 10.6 years ago by ▴ 80 • written 12.7 years ago by ▴ 100
8
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4
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2.1k
views
Equivalence tests with edgeR
rnaseq edger equivalence
updated 10.7 years ago by ★ 29k • written 10.7 years ago by ▴ 20
2
votes
2
replies
3.9k
views
Down/Up-regulated genes asymmetry in edgeR differential expression analysis
edgeR rnaseq
10.7 years ago Pauly Lin ▴ 160
0
votes
1
reply
1.5k
views
edgeR MDS plot
RNASeq RNASeq
updated 10.7 years ago by 53k • written 13.7 years ago by ▴ 20
1
vote
5
replies
1.1k
views
matrix design and test advice
rnaseq
updated 10.7 years ago by ★ 29k • written 10.7 years ago by • 0
5
votes
7
replies
4.7k
views
How to specify 'contrast' in glmLRT command when treatments in design matrix are named with numbers, not letters
edger rnaseq glmlrt()
updated 10.7 years ago by 68k • written 10.7 years ago by • 0
3
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5
replies
2.6k
views
PCA of voom weight values
limma voom rnaseq
updated 10.7 years ago by 53k • written 10.7 years ago by ▴ 140
18
votes
17
replies
5.5k
views
How to model a comparison between comparisons in edgeR?
edger rnaseq
updated 10.7 years ago by ★ 7.9k • written 10.7 years ago by ▴ 60
0
votes
0
replies
2.5k
views
Job: Abbvie -- Senior Manager/Associate Director, Exploratory Statistics
genomics genetics proteomics rnaseq microarray Job
10.7 years ago Feng Hong • 0
4
votes
4
replies
5.8k
views
Rsubread installation issues
rnaseq
10.7 years ago lshepard ▴ 40
0
votes
1
reply
2.0k
views
Job: Bioinformatics Post-Doc Positions
cancer BIOINFORMATICS genomics RNAseq miRseq Job
10.7 years ago aaron • 0
10
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10
replies
8.2k
views
GLM Likelihood ratio test
rnaseq edgeR GLM
updated 10.7 years ago by 53k • written 10.7 years ago by • 0
3
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4
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1.9k
views
DESeq2 detects DE when expression is 0 under both contrast levels
deseq2 rnaseq r
updated 10.7 years ago by 43k • written 10.7 years ago by • 0
3
votes
5
replies
6.1k
views
Error with featureCounts
featurecounts rnaseq rsubread
updated 10.8 years ago by ▴ 450 • written 10.8 years ago by ▴ 20
1
vote
1
reply
11k
views
Undertanding how DESeq2 handles multiple test conditions
rnaseq deseq2 r
updated 10.8 years ago by ★ 7.9k • written 10.8 years ago by ▴ 20
9
votes
8
replies
23k
views
Integrating DESeq2 and TopGO for Enrichment
go deseq2 rnaseq r
updated 10.8 years ago by ▴ 610 • written 10.8 years ago by ▴ 20
4
votes
3
replies
1.4k
views
stacking (partially or completely overlapping) GRanges/IRanges
granges iranges rnaseq
updated 10.8 years ago by 25k • written 10.8 years ago by ★ 2.1k
5
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2
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7.8k
views
Ballgown vs (voom,edgeR,DESeq,limma)
limma rnaseq differential expression voom
updated 10.8 years ago by ▴ 210 • written 10.9 years ago by ▴ 50
2
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2
replies
3.4k
views
DESeq2 design matrix for 6 groups
rnaseq deseq2 design and contrast matrix
updated 10.8 years ago by 43k • written 10.8 years ago by ▴ 20
2
votes
2
replies
6.3k
views
DESeq2 factor design vs pair-wise comparison
deseq2 rnaseq
10.8 years ago shin.jx • 0
5
votes
12
replies
8.7k
views
Remove batch effect in small RNASeq study (SVA or others?)
RNASeq Alignment edgeR sva
updated 10.8 years ago by 53k • written 11.6 years ago by ★ 1.0k
5
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6
replies
7.7k
views
proper transformation for differential expression in normalized log expression data
tcga rnaseq deseq2 vsn edger
updated 10.9 years ago by 53k • written 10.9 years ago by • 0
0
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0
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2.2k
views
News: RNAseq data analysis courses: Torino (Italy) : Beginner course March 17-19 2015 & Advance Course April 14-16 2015
rnaseq mirna onechannelgui chimera News
10.9 years ago raffaele calogero ▴ 500
6
votes
14
replies
7.2k
views
GenomicAlignments is too slow with summarizeOverlaps
genomicalignments RNASeq genomicfeatures summarizeoverlaps
updated 10.9 years ago by 53k • written 10.9 years ago by • 0
1
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2
replies
1.9k
views
edgeR design matrix question
edgeR limma rnaseq design and contrast matrix
updated 10.9 years ago by 53k • written 10.9 years ago by • 0
0
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0
replies
1.6k
views
CummeRbund error problem
software error cummerbund rnaseq
10.9 years ago ytanaka • 0
1
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7
replies
5.0k
views
DESeq2 outlier detection not filtering
DESeq2 outlier RNASeq
updated 11.0 years ago by 43k • written 11.0 years ago by • 0
0
votes
2
replies
2.3k
views
quasR - how are exon identifiers for exon counts determined
rnaseq exon quasr
updated 11.0 years ago by ★ 13k • written 11.0 years ago by • 0
0
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0
replies
1.2k
views
makeTranscriptDbFromGFF errors when loading bacterial genes from gff
genomicfeatures rnaseq
11.0 years ago agd27 • 0
9
votes
9
replies
6.2k
views
Voom on TCGA data shifts count distributions towards negative values
voom TCGA RNAseq
11.0 years ago paola.ostano ▴ 10
1,410 results • Page 24 of 29
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Comment: featureCounts -L: high unassigned:mapq fraction by insurancetaaddddaxrealty • 0
FeatureCounts can behave differently with ONT cDNA BAM files due to long read splice patterns, and many users compare settings or presets m…
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The Bioconductor version must be compatible with the R version. Bioconductor version 3.18 is compatible with R version 4.3. The Dockerfile …
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Your proposed code is correct and will achieve the desired outcome. The boolean filter expression `IFNg & TNFa | IFNg & IL2 | TNFa & IL2` i…
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The discrepancy between `final_exp1` and `final_exp2` could arise from several factors, despite matching dimensions. The `identical()` func…
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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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