Showing : GeneExpression • reset
2
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"could not find function "readTSGE" in package ctsGE" Error occurs when trying to follow ctsGE package instructions.
GeneExpression Clustering ctsGE
8 weeks ago jbgnielson • 0
2
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2
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393
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DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort to infer dispersion of single sample
GeneExpression DESeq2 RNASeqData RNASeq StatisticalMethod
5 months ago Manthos • 0
2
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3
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1.6k
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TPM from STAR mapped counts
GeneExpression GenomicFeatures RNA-Seq TPM
updated 7 months ago by 50k • written 7 months ago by • 0
0
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1
reply
464
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Read methylation data from tar files on GEO (GSE73303)
GeneExpression Bioconductor GEOquery MethylationArrayData
9 months ago Arianna • 0
0
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2
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1.7k
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FeatureCounts Output Counts at Exon Level Using Default Settings, want gene level
GeneExpression
12 months ago CDSPARKS ▴ 10
0
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1
reply
618
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Heatmap of two conditions from the normalized gene count data
GeneExpression heatmaps
updated 13 months ago by ★ 4.0k • written 14 months ago by • 0
0
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1
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2.3k
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DESeq2 after Seurat analysis on integrated datasets
DESeq2 SingleCell GeneExpression Seurat
updated 14 months ago by ★ 4.0k • written 14 months ago by • 0
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4
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1.6k
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Comparing different method for DESEQ2
DESeq2 GeneExpression
updated 19 months ago by 41k • written 19 months ago by • 0
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3
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984
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CountOverlap
GeneExpression ChIPSeqData
updated 19 months ago by 65k • written 19 months ago by ▴ 20
0
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0
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436
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Free Gibbson energy RNA doublex
GeneExpression RNAinteract
20 months ago Tamina • 0
1
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0
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563
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Error while running Case study n. 3: Integration of methylation and expression for ACC
geneexpression methylation
21 months ago hlee ▴ 10
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2
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924
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Seeking help in multifactor differential gene expression analysis using DESeq2. Can not get significance difference while comparing 3 time factor (…
DifferentialExpression GeneExpression R enrichment DEGseq
updated 22 months ago by ★ 1.3k • written 22 months ago by • 0
0
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1
reply
531
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Error "DESeqDataSetFromMatrix" function not found
GeneExpression
updated 22 months ago by ▴ 780 • written 22 months ago by • 0
0
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1
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628
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Aggregate differentially expressed genes across all contrast results using DEVis
DifferentialExpression NanoporeRNASeq DESeq2 GeneExpression DEVis
updated 23 months ago by 65k • written 23 months ago by • 0
1
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1
reply
759
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Error while using champ.SVD function
GeneExpression
updated 2.0 years ago by ▴ 780 • written 2.0 years ago by • 0
0
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1
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1.9k
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GDCprepare of STAR - counts
GeneExpression TCGAbiolinks
updated 19 months ago by • 0 • written 2.0 years ago by • 0
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0
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835
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Volcano plot: Putting calculated values in legend
GeneExpression
updated 2.0 years ago by ★ 3.9k • written 2.0 years ago by • 0
2
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2
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812
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Could use some advice on analyzing ranks of expressed genes in two conditions,
GeneExpression DESeq2 ExpressionData
updated 2.1 years ago by • 0 • written 2.1 years ago by ▴ 10
0
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2
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2.0k
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Using DESeq2 for Differential Expression Analysis with Interaction Term
DifferentialExpression GeneExpression DESeq2 Design()
2.6 years ago p.l.chen • 0
2
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2
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6.8k
views
Deseq2 and log2foldchange cutoffs- How to get differentially expressed genes?
DifferentialExpression GeneExpression DESeq2 R
updated 2.6 years ago by ★ 4.0k • written 2.6 years ago by ▴ 10
0
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2
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951
views
Gene expression in R
limma edgeR Biobase GeneExpression
2.6 years ago sogol.bouyeh • 0
2
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2
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1.6k
views
DESeq2 - one groups with no replicates
DESeq2 rnaseqGene DifferentialExpression GeneExpression
2.9 years ago SUMIT • 0
5
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18
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2.8k
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DESeq2 comparison two cell types and two genotypes
GeneExpressionWorkflow DESeq2 GeneExpression
updated 3.0 years ago by 41k • written 3.0 years ago by • 0
1
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3
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960
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DESeq analysis with Biological replicate.
DESeq2 ExpressionData GeneExpression
updated 3.2 years ago by 41k • written 3.2 years ago by • 0
1
vote
1
reply
726
views
Accounting for fish body mass in DE?
GeneExpression edgeR
updated 3.3 years ago by 65k • written 3.3 years ago by • 0
0
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1
reply
741
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Find significant genes related to a specific disease
GeneExpression RNASeqR limma
updated 3.4 years ago by ▴ 490 • written 3.4 years ago by • 0
1
vote
3
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956
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Troubles implementing LIMMA for paired samples (before/after treatment) comparaisons
GeneExpression R limma MultipleComparison
updated 3.4 years ago by 65k • written 3.4 years ago by • 0
0
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0
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614
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Diffrential Gene expression in a group of specific methylated prometor patience
GeneExpression methyAnalysis MethylationArray
3.5 years ago coobzie • 0
2
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5
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11k
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Calculating FPKM from raw counts data using fpkm() in deseq2
deseq2 r fpkm() geneexpression
updated 5.6 years ago by 41k • written 5.6 years ago by ▴ 60
1
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4
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2.0k
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 6.0 years ago by 21k • written 6.0 years ago by ▴ 10
3
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1
reply
1.7k
views
Processing several GSM from GEO database using Barcode and fRMA
frma barcode geneexpression gsm ncbi geo
updated 6.5 years ago by ▴ 830 • written 6.5 years ago by • 0
1
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4
replies
1.8k
views
ddCT Package for StepOnePlus qPCR output
qPCR ddCt geneexpression
updated 6.8 years ago by ▴ 120 • written 6.8 years ago by ▴ 60
1
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3
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1.2k
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General suggestions regarding gene expression
geneexpression
updated 7.2 years ago by 50k • written 7.2 years ago by • 0
0
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0
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891
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Where or how to find the gene interaction with itself?
microarray gene interaction geneexpression
7.3 years ago shaheryar • 0
0
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0
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1.2k
views
Error in SAMseq analysis with R
r samseq microarray rnaseq geneexpression
7.7 years ago namilio • 0
0
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0
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1.1k
views
Methylation and gene expression
methylation geneexpression
7.7 years ago Asma rabe ▴ 290
0
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2
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1.1k
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Methylation and gene expression data
methylation geneexpression
updated 7.9 years ago by ▴ 130 • written 7.9 years ago by ▴ 290
0
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3
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1.6k
views
error in drawing MDS plot for eset
MDSplot geneexpression insilicomerging
updated 8.1 years ago by 65k • written 8.1 years ago by ▴ 20
1
vote
6
replies
1.8k
views
how to deal the effect of enormous gene expression?
deseq2 rnaseq tomato geneexpression
updated 8.2 years ago by 41k • written 8.2 years ago by • 0
0
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1
reply
1.3k
views
Error in MetaQC R package.
r metaqc microarray geneexpression
8.4 years ago Agaz Hussain Wani ▴ 260
0
votes
3
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1.8k
views
problem with WGCNA
geneexpression
updated 8.5 years ago by ★ 3.0k • written 8.5 years ago by • 0
2
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5
replies
1.7k
views
heatmap in R
r language microarray geneexpression
updated 8.7 years ago by ★ 1.0k • written 8.7 years ago by • 0
1
vote
1
reply
1.2k
views
gene expression data analysis
microarray geneexpression
updated 8.7 years ago by 65k • written 8.7 years ago by • 0
1
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1
reply
5.1k
views
NA p and p adjusted value
geneexpression
updated 8.7 years ago by ★ 3.0k • written 8.7 years ago by • 0
1
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2
replies
5.7k
views
explanation of makeContrasts function of limma package
limma microarray R geneexpression
updated 8.7 years ago by ★ 28k • written 8.7 years ago by ▴ 10
0
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3
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11k
views
How to combine expression values of multiple probes for one gene
probe convert geneexpression onechannelgui
updated 8.8 years ago by ▴ 830 • written 8.8 years ago by ▴ 10
0
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0
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1.1k
views
Using segAnglePo() for a set of genes
geneexpression genesetenrichment segAnglePo
9.4 years ago Peter.Wood • 0
3
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5
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8.5k
views
limma voom accessing normalised counts tables
limma rnaseq geneexpression voom counts
updated 9.5 years ago by ★ 13k • written 9.5 years ago by ▴ 10
9
votes
7
replies
9.2k
views
DESeq2 timecourse - How to set the experimental design
deseq2 geneexpression timecourse
updated 9.5 years ago by ★ 13k • written 9.6 years ago by ▴ 10
4
votes
2
replies
4.0k
views
Selecting genes based on expressional variance
geneexpression wgcna rnaseq
updated 9.6 years ago by 1.6k • written 9.6 years ago by ▴ 250
50 results • Page 1 of 1
Recent ...
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Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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