Showing : geneexpression • reset
0
votes
1
reply
286
views
Reading gene expression data in GPR format and converting it to xlsx format
BiocWorkflowTools BiomedicalInformatics GeneExpression
updated 21 days ago by 68k • written 21 days ago by • 0
0
votes
1
reply
222
views
WGCNA sample-data preprocessing order
Microarray WGCNA GeneExpression
updated 9 weeks ago by ★ 4.8k • written 10 weeks ago by • 0
2
votes
1
reply
320
views
Using Affymetrix Custom Array
ArrayExpress makecdfenv AffymetrixChip gcrma GeneExpression
updated 4 months ago by 68k • written 4 months ago by • 0
0
votes
1
reply
342
views
Is my time course analysis with DESeq2 valid?
GeneExpression DESeq2 TimeCourse
updated 4 months ago by 43k • written 4 months ago by • 0
4
votes
9
replies
1.0k
views
Can DESeq2 rlog normalized matrix reflects time course result directly?
DESeq2 timecoursedata GeneExpression
updated 10 months ago by ★ 4.8k • written 10 months ago by • 0
2
votes
3
replies
834
views
"could not find function "readTSGE" in package ctsGE" Error occurs when trying to follow ctsGE package instructions.
GeneExpression Clustering ctsGE
13 months ago jbgnielson • 0
2
votes
2
replies
829
views
DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort to infer dispersion of single sample
GeneExpression DESeq2 RNASeqData RNASeq StatisticalMethod
16 months ago Manthos • 0
2
votes
3
replies
4.1k
views
TPM from STAR mapped counts
GeneExpression GenomicFeatures RNA-Seq TPM
updated 18 months ago by 52k • written 18 months ago by • 0
0
votes
1
reply
858
views
Read methylation data from tar files on GEO (GSE73303)
GeneExpression Bioconductor GEOquery MethylationArrayData
20 months ago Arianna • 0
2
votes
2
replies
3.2k
views
FeatureCounts Output Counts at Exon Level Using Default Settings, want gene level
GeneExpression
23 months ago CDSPARKS ▴ 30
0
votes
1
reply
973
views
Heatmap of two conditions from the normalized gene count data
GeneExpression heatmaps
updated 2.1 years ago by ★ 4.8k • written 2.1 years ago by • 0
0
votes
1
reply
4.2k
views
DESeq2 after Seurat analysis on integrated datasets
DESeq2 SingleCell GeneExpression Seurat
updated 2.1 years ago by ★ 4.8k • written 2.1 years ago by • 0
3
votes
4
replies
2.5k
views
Comparing different method for DESEQ2
DESeq2 GeneExpression
updated 2.5 years ago by 43k • written 2.5 years ago by • 0
0
votes
3
replies
1.4k
views
CountOverlap
GeneExpression ChIPSeqData
updated 2.5 years ago by 68k • written 2.5 years ago by ▴ 20
0
votes
0
replies
628
views
Free Gibbson energy RNA doublex
GeneExpression RNAinteract
2.6 years ago Tamina • 0
1
vote
0
replies
842
views
Error while running Case study n. 3: Integration of methylation and expression for ACC
geneexpression methylation
2.7 years ago hlee ▴ 10
0
votes
2
replies
1.2k
views
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 2.7 years ago by ★ 1.4k • written 2.7 years ago by • 0
0
votes
1
reply
843
views
Error "DESeqDataSetFromMatrix" function not found
GeneExpression
updated 2.8 years ago by ▴ 780 • written 2.8 years ago by • 0
0
votes
1
reply
901
views
Aggregate differentially expressed genes across all contrast results using DEVis
DifferentialExpression NanoporeRNASeq DESeq2 GeneExpression DEVis
updated 2.8 years ago by 68k • written 2.8 years ago by • 0
1
vote
1
reply
1.1k
views
Error while using champ.SVD function
GeneExpression
updated 2.9 years ago by ▴ 780 • written 2.9 years ago by • 0
0
votes
1
reply
2.3k
views
GDCprepare of STAR - counts
GeneExpression TCGAbiolinks
updated 2.5 years ago by • 0 • written 2.9 years ago by • 0
0
votes
0
replies
1.1k
views
Volcano plot: Putting calculated values in legend
GeneExpression
updated 3.0 years ago by ★ 4.0k • written 3.0 years ago by • 0
2
votes
2
replies
1.1k
views
Could use some advice on analyzing ranks of expressed genes in two conditions,
GeneExpression DESeq2 ExpressionData
updated 3.0 years ago by • 0 • written 3.1 years ago by ▴ 10
0
votes
2
replies
2.6k
views
Using DESeq2 for Differential Expression Analysis with Interaction Term
DifferentialExpression GeneExpression DESeq2 Design()
3.5 years ago p.l.chen • 0
2
votes
2
replies
8.2k
views
Deseq2 and log2foldchange cutoffs- How to get differentially expressed genes?
DifferentialExpression GeneExpression DESeq2 R
updated 3.5 years ago by ★ 4.8k • written 3.5 years ago by ▴ 10
0
votes
2
replies
1.3k
views
Gene expression in R
limma edgeR Biobase GeneExpression
3.6 years ago sogol.bouyeh • 0
2
votes
2
replies
2.1k
views
DESeq2 - one groups with no replicates
DESeq2 rnaseqGene DifferentialExpression GeneExpression
3.8 years ago SUMIT • 0
5
votes
18
replies
3.7k
views
DESeq2 comparison two cell types and two genotypes
GeneExpressionWorkflow DESeq2 GeneExpression
updated 3.9 years ago by 43k • written 3.9 years ago by • 0
1
vote
3
replies
1.2k
views
DESeq analysis with Biological replicate.
DESeq2 ExpressionData GeneExpression
updated 4.2 years ago by 43k • written 4.2 years ago by • 0
1
vote
1
reply
915
views
Accounting for fish body mass in DE?
GeneExpression edgeR
updated 4.2 years ago by 68k • written 4.2 years ago by • 0
0
votes
1
reply
954
views
Find significant genes related to a specific disease
GeneExpression RNASeqR limma
updated 4.3 years ago by ▴ 510 • written 4.3 years ago by • 0
1
vote
3
replies
1.3k
views
Troubles implementing LIMMA for paired samples (before/after treatment) comparaisons
GeneExpression R limma MultipleComparison
updated 4.3 years ago by 68k • written 4.3 years ago by • 0
0
votes
0
replies
802
views
Diffrential Gene expression in a group of specific methylated prometor patience
GeneExpression methyAnalysis MethylationArray
4.4 years ago coobzie • 0
2
votes
5
replies
13k
views
Calculating FPKM from raw counts data using fpkm() in deseq2
deseq2 r fpkm() geneexpression
updated 6.5 years ago by 43k • written 6.5 years ago by ▴ 60
1
vote
4
replies
2.6k
views
Need help loading gene expression data into R using either ArrayExpress or GEOquery R packages
arrayexpress geoquery geneexpression
updated 7.0 years ago by 21k • written 7.0 years ago by ▴ 10
3
votes
1
reply
2.2k
views
Processing several GSM from GEO database using Barcode and fRMA
frma barcode geneexpression gsm ncbi geo
updated 7.4 years ago by ▴ 830 • written 7.4 years ago by • 0
1
vote
4
replies
2.1k
views
ddCT Package for StepOnePlus qPCR output
qPCR ddCt geneexpression
updated 7.7 years ago by ▴ 120 • written 7.7 years ago by ▴ 60
1
vote
3
replies
1.4k
views
General suggestions regarding gene expression
geneexpression
updated 8.1 years ago by 52k • written 8.1 years ago by • 0
0
votes
0
replies
1.1k
views
Where or how to find the gene interaction with itself?
microarray gene interaction geneexpression
8.3 years ago shaheryar • 0
0
votes
0
replies
1.3k
views
Error in SAMseq analysis with R
r samseq microarray rnaseq geneexpression
8.6 years ago namilio • 0
0
votes
0
replies
1.4k
views
Methylation and gene expression
methylation geneexpression
8.6 years ago Asma rabe ▴ 290
0
votes
2
replies
1.3k
views
Methylation and gene expression data
methylation geneexpression
updated 8.9 years ago by ▴ 130 • written 8.9 years ago by ▴ 290
0
votes
3
replies
1.8k
views
error in drawing MDS plot for eset
MDSplot geneexpression insilicomerging
updated 9.0 years ago by 68k • written 9.0 years ago by ▴ 20
1
vote
6
replies
2.1k
views
how to deal the effect of enormous gene expression?
deseq2 rnaseq tomato geneexpression
updated 9.1 years ago by 43k • written 9.1 years ago by • 0
0
votes
1
reply
1.5k
views
Error in MetaQC R package.
r metaqc microarray geneexpression
9.3 years ago Agaz Hussain Wani ▴ 260
0
votes
3
replies
2.3k
views
problem with WGCNA
geneexpression
updated 9.4 years ago by ★ 3.0k • written 9.4 years ago by • 0
2
votes
5
replies
2.0k
views
heatmap in R
r language microarray geneexpression
updated 9.6 years ago by ★ 1.1k • written 9.6 years ago by • 0
1
vote
1
reply
1.4k
views
gene expression data analysis
microarray geneexpression
updated 9.6 years ago by 68k • written 9.6 years ago by • 0
1
vote
1
reply
5.6k
views
NA p and p adjusted value
geneexpression
updated 9.6 years ago by ★ 3.0k • written 9.6 years ago by • 0
1
vote
2
replies
6.7k
views
explanation of makeContrasts function of limma package
limma microarray R geneexpression
updated 9.7 years ago by ★ 28k • written 9.7 years ago by ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: Design Matrix with paired and independent samples plus RUVg Spike-in normalizati by Mei • 0
I have a similar experiment with 7 paired samples (T0 and T1) in each of 4 outcome groups. I am using RUVr combined with limma-voom, so I a…
Comment: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran by Arctic • 0
Many thanks for the link to the C++ code. I will see if I can find someone with C++ experience to help me with the code breakdown from her…
Answer: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran by Aaron Lun ★ 28k
It's calling C++ code, see the relevant function definitions on [GitHub](https://github.com/knncolle/BiocNeighbors/blob/master/src/generics…
Answer: DESeq2 by ATpoint ★ 4.8k
Time courses are often inevitable batches but you should have done the library prep at the same day, just extract RNA per day. If not then …
Comment: Package developing and interoperation with Bioconductor by slizchap • 0
Thank you so much for your answer. This was very useful, I will optimize my functions so they can handle SE objects.
Votes
Comment: plyranges: find exact GRanges match keeping metadata columns
Answer: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran
Is it possible to speed up VariantAnnotation's rowRanges function when converting to a dataframe?
Answer: Is it possible to speed up VariantAnnotation's rowRanges function when convertin
Comment: ComBat with repeated measures
Awards • All
Popular Question to Marianna ▴ 20
Popular Question to Dunois • 0
Popular Question to igor ▴ 50
Popular Question to Gordon Smyth 52k
Popular Question to Arctic • 0
Locations • All
Denmark, 5 minutes ago
United States, 20 minutes ago
EMBL Heidelberg, 23 minutes ago
United States, 27 minutes ago
United States, 35 minutes ago
Traffic: 912 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