Showing : RNASeqData • reset
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After running samtools, the featureCounts command crashed.
RNASeqData Bioconductor RNASeq
updated 1 day ago by ★ 4.0k • written 7 weeks ago by • 0
3
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13
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2.1k
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Highly DE genes but small count difference within conditions
RNASeq DESeq2 RNASeqData
written 13 months ago by • 0
3
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2
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1.4k
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Biological replicates consideration in DESeq2 design formula.
DESeq2 RNASeqData RNASeq
written 5 months ago by ▴ 20
0
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1
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741
views
DESeq2
org.Mmu.eg.db DESeq2 TimeCourse DMSOvsdrug RNASeqData
updated 7 months ago by ★ 5.0k • written 7 months ago by • 0
1
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1
reply
412
views
Merging annotation with differential expression output
annotation RNASeqData
updated 7 months ago by 68k • written 7 months ago by • 0
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3
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960
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Differential variance analysis - can i use deseq2
DESeq2 DifferentialExpression RNASeq RNASeqData scRNAseq
updated 8 months ago by 43k • written 8 months ago by • 0
0
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0
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333
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My DEXSeqDataSetFromSE is returning an Error, but all of my checks to seem to indicate that this error is not present
DifferentialSplicing RNASeqData DEXSeq
9 months ago cftattersfield • 0
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5
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686
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Is there a way to do DEG analysis across two batches sharing one sample only?
DESeq2 DifferentialExpression RNASeqData BatchEffect
written 9 months ago by • 0
0
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1
reply
448
views
Correlation between gene clusters
genomes RNASeqData
written 10 months ago by • 0
0
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2
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686
views
Mean variance curve troubleshoot filtering
limmavoom filtering edgeR RNASeqData meanvariancetrend
10 months ago gingergeiger22 • 0
2
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1
reply
675
views
Is it possible to work with DESeq2 where data is not properly matched for sex and age
DESeq2 RNASeqData
updated 10 months ago by 43k • written 10 months ago by • 0
0
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1
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587
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combining raw counts and estimated counts
RNASeqData GEO TCGAbiolinks
updated 10 months ago by • 0 • written 10 months ago by • 0
2
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1
reply
691
views
DESeq2- merging technical vs biological replicates
DESeq2 RNASeqData
updated 11 months ago by 43k • written 11 months ago by • 0
0
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4
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1.1k
views
RNA-seq: samples form different experiments, how to do DGEs?
DGEs edgeR RNASeqData
12 months ago Philippine • 0
0
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2
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766
views
ESTMATE, MCPcounter, EPIC, xCell input
DESeq2 ESTIMATE RNASeqData MCPcounter
written 12 months ago by • 0
1
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1
reply
925
views
WGCNA
DEGselection RNASeqData WGCNA
updated 13 months ago by ▴ 760 • written 13 months ago by • 0
1
vote
1
reply
640
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Normalization RNA-seq for multiple plates
Normalization DESeq2 RNASeqData edgeR
updated 13 months ago by ★ 5.0k • written 13 months ago by • 0
1
vote
1
reply
847
views
Help with design matrix for RNA-seq data using edgeR
edgeR RNASeqData
updated 14 months ago by 53k • written 14 months ago by • 0
1
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2
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3.1k
views
How to use compareCluster in ClusterProfiler?
RNASeqData GSEA clusterProfiler
written 14 months ago by • 0
1
vote
2
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663
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Questions in Regards to LFC shrinkage in DESeq2
Dseq2 RNASeqData apeglm
14 months ago Gordon • 0
0
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3
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970
views
Error when trying to do different pairwise comparisons and lfcshrink than what's listed on resultsNames()
RNASeqData DESeq2 RNASeq DifferentialExpression
updated 15 months ago by ★ 5.0k • written 15 months ago by • 0
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4
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1.1k
views
DE analysis in EdgeR /Can any one please help me.
RNASeqData DEGraph RNASeq edgeR DegNorm
written 16 months ago by • 0
1
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3
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1.9k
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Combining two bulk RNA seq datasets
RNASeqData DESeq2 Normalization
17 months ago • updated 16 months ago Tanvi • 0
1
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3
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1.0k
views
Including infectivity information to RNA-Seq analysis
RNASeqData DESeq2 RNA-Seq RNASeq
updated 17 months ago by 68k • written 17 months ago by ▴ 50
0
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1
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631
views
How to identify transcripts/genes with differential kinetics in two genotypes, using time-course RNA seq data?
RNASeqData DESeq2 DifferentialExpression
updated 17 months ago by 68k • written 17 months ago by • 0
0
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1
reply
709
views
ReactomeGSA for RNASeq
ReactomeGSA BatchEffect RNASeqData
updated 14 months ago by ▴ 20 • written 18 months ago by • 0
0
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1
reply
634
views
NEED FOR NESSASORY HELP
RNASeqData edgeR
updated 18 months ago by 53k • written 18 months ago by • 0
0
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1
reply
643
views
Brachypodium distachyon db
EnrichmentBrowser BrachypodiumDB RNASeqData
updated 19 months ago by 68k • written 19 months ago by • 0
3
votes
5
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1.7k
views
DESEQ Inquiry
DESeq2 rnaseqGene RNASeqData limma RNASeq
updated 20 months ago by 43k • written 20 months ago by ▴ 10
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0
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753
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Differential expression analysis between different species
DEG RNASeqData DifferentialExpression SCBN RNASeq
21 months ago Abril • 0
1
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2
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2.4k
views
How to combine a bulk and pseudobulk dataset?
DESeq2 limma RNASeq RNASeqData
written 2.5 years ago by • 0
1
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3
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1.2k
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DESeq2 analysis on time-series RNA experiment
RNASeqData DESeq2 RNASeq
21 months ago island • 0
0
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2
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817
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ConsensusClusterPlus dosesn't make an output file
ConsensusClusterPlus RNASeqData
21 months ago Diana • 0
0
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1
reply
1.1k
views
WGCNA Soft Power
Normalization DESeq2 Network RNASeqData
updated 21 months ago by ★ 5.0k • written 21 months ago by • 0
5
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6
replies
1.5k
views
Monotonic genes in results of differential gene expression analysis
DifferentialExpression rnaseqGene RNASeqData
21 months ago Shaimaa Gamal • 0
1
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1
reply
953
views
Deseq2 -Model matrix not full rank error: A complex case
RNASeqData DifferentialExpression DESeq2
updated 22 months ago by ★ 5.0k • written 22 months ago by • 0
0
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2
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1.2k
views
StringDB: Cannot use payload mechanism to colour nodes
RNASeqData STRINGdb DifferentialExpression GraphAndNetwork Network
23 months ago Luca • 0
0
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1
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1.7k
views
Interaction terms in DESeq2
RNASeqData RnaSeqSampleSize DESeq2
updated 23 months ago by 68k • written 23 months ago by • 0
1
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2
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1.1k
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RNASeq time course analysis, missing time points for control
RNASeqData RnaSeqSampleSize RNASeq RNASeqPower
23 months ago drewhaydensteele • 0
1
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1
reply
929
views
Differential gene expression analysis
RNASeqData RNAseq123
updated 23 months ago by ★ 5.0k • written 23 months ago by • 0
1
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2
replies
1.8k
views
Different results from blockwiseModules and blockwiseConsensusModules individual TOM
RNASeqData WGCNA consensusnetworks
23 months ago • updated 22 months ago Levi • 0
0
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3
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2.6k
views
DESeq: Error in DESeqDataSet(se, design = design, ignoreRank) : some values in assay are negative
RNASeqData DESeq2
23 months ago Oenone • 0
3
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4
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1.4k
views
Is it appropriate to apply linear mixed models to Voom transformed data?
stats r RNASeqData limma voom
23 months ago pl23 • 0
0
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1
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777
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DESeq2 and determining effects of treatment on a priori/candidate genes from a bulk-RNAseq experiment
RNASeqData DifferentialExpression DESeq2
updated 23 months ago by 43k • written 24 months ago by ▴ 10
2
votes
2
replies
1.1k
views
DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort to infer dispersion of single sample
GeneExpression DESeq2 RNASeqData RNASeq StatisticalMethod
24 months ago • updated 23 months ago Manthos • 0
0
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1
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877
views
DESeq2 interaction between one continuous variable and one categorical variable
RNASeqData DESeq2
updated 24 months ago by ★ 13k • written 2.0 years ago by • 0
0
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2
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956
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Is my data too noisy for DESeq? Should I model noise as unwanted variation?
RNASeqData DESeq2
2.0 years ago Ben ▴ 10
0
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2
replies
2.6k
views
MA plot for DESEq2 analysis
RNASeqData DESeq2
2.0 years ago RHEA • 0
2
votes
3
replies
2.6k
views
Two factor design including interaction effect with DESeq2 in R
DESeq2 RNASeqData deseq2 ExperimentalDesign
updated 2.0 years ago by ★ 1.4k • written 2.0 years ago by • 0
1
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1
reply
1.0k
views
Multiple comparison using DESeq2
RNASeqData RNASeq DESeq2
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
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Comment: Save the Date: BioC2026 by eja.gsssssswwse.r.m • 0
Que notícia incrivel sobre o BioC2026 Para quem gosta de aproveitar o conteudo online, também e possvel Baixar [snaptube versão antiga][1] …
Comment: Ensembl 115 has been released! by eja.gsssssswwse.r.m • 0
Keeping up with Ensembls latest release ensures access to cutting-edge genomic information. For those balancing research and leisure, a mob…
Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Answer: Problem with the TMB plot by Kevin Blighe ★ 4.0k
Hi, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to filtering ap…
Answer: gene Set with high AUC score but no cells assigned to cell type by Kevin Blighe ★ 4.0k
Hi, You have correctly identified the issue: AUCell's automatic threshold selection is conservative by design, aiming for specificity to…
Votes
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Suppress warning in RHDF5 write
Answer: Suppress warning in RHDF5 write
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