Showing : Normalization • reset
0
votes
2
replies
411
views
WGCNA
WGCNA Normalization RNASeq
updated 9 weeks ago by • 0 • written 9 weeks ago by • 0
0
votes
2
replies
347
views
Meffil: error in functional normalization function (Error in rg.to.mu(rg, probes))
methylationArrayAnalysis Normalization Epigenetics MethylationArrayData
11 weeks ago a.alkema • 0
6
votes
5
replies
763
views
How do I fix an odd voom plot in a combined dataset?
limma Normalization voom
updated 3 months ago by 68k • written 3 months ago by • 0
0
votes
0
replies
220
views
Lipidomics Barplot: raw values or non-log, lipidr-normalized values?
Normalization Lipidomics lipidr
5 months ago David R ▴ 90
3
votes
4
replies
895
views
Limma- Print-tip loess normalisation-printer layout information does not match M row dimension
Normalization limma within-arraynormalisation Printerlayout
5 months ago dseauer • 0
1
vote
2
replies
1.1k
views
Consistent Decimals In Data After Antibody Array Background Correction Using Limma:nec Function
limma MicroarrayData Normalization
5 months ago Ai • 0
0
votes
0
replies
361
views
Diffbind: Cut&Run: E-coli spike-in
Normalization DiffBind
5 months ago kim • 0
0
votes
1
reply
672
views
Spike-in normalization method in ATACseq
sperm Drosophila_melanogaster ATACSeq Normalization SpikeIn
updated 5 months ago by ★ 4.8k • written 5 months ago by • 0
3
votes
4
replies
869
views
Are transformed values from rlog /vst log2 normalized counts?
Normalization DESeq2 rlog vst
6 months ago Eva ▴ 10
0
votes
0
replies
358
views
Background normalization of Diffbind dba.normalize
Normalization DiffBind
6 months ago Young Boqin • 0
1
vote
1
reply
389
views
Normalization RNA-seq for multiple plates
Normalization DESeq2 RNASeqData edgeR
updated 6 months ago by ★ 4.8k • written 6 months ago by • 0
1
vote
5
replies
1.2k
views
RNASeq normlization for samples with global shift in gene expression
qsmooth DESeq2 limma Normalization
updated 8 months ago by 52k • written 8 months ago by • 0
0
votes
2
replies
500
views
Analysis of transcription inhibition with DESeq2
SpikeIn DESeq2 Normalization
written 8 months ago by • 0
1
vote
3
replies
1.5k
views
Combining two bulk RNA seq datasets
RNASeqData DESeq2 Normalization
10 months ago Tanvi • 0
2
votes
2
replies
688
views
Control group between 2 batches have different expression in RNAseq data
BatchQC BatchEffect rnaseqGene Normalization
updated 10 months ago by ▴ 10 • written 11 months ago by • 0
0
votes
2
replies
768
views
Normalisation using clinical traits in RNA seq using DESeq2
DESeq2 clinicaltraits Normalization batchnormalisation
11 months ago sukeshinik5 ▴ 20
0
votes
1
reply
532
views
normalization across different species for DESeq2 analysis
DESeq2 normalization Normalization acrossspecies
updated 11 months ago by 43k • written 11 months ago by • 0
0
votes
1
reply
552
views
normalization using Deseq2
DESeq2 rnaseqGene Normalization
updated 11 months ago by ★ 4.8k • written 11 months ago by • 0
2
votes
2
replies
1.3k
views
[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind Normalization
12 months ago Henry ▴ 10
1
vote
6
replies
1.3k
views
DESeq2 step-by-step Normalization then DGE separately & Normalization methods and switchability
DESeq2 Normalization
updated 12 months ago by 43k • written 12 months ago by • 0
0
votes
2
replies
710
views
edgeR analysis: glm functions and offset matrix
tximport edgeR Normalization
12 months ago Marianna ▴ 20
1
vote
4
replies
881
views
EDAseq to normalise for both gene-length and GC-content
norma EDASeq EDA Normalization
13 months ago samuel.channon • 0
0
votes
0
replies
490
views
TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
13 months ago Giovanni Calice ▴ 160
2
votes
1
reply
621
views
Normalization factors when there is a possible unidirectional expression
limma Normalization DifferentialExpression
updated 14 months ago by ★ 4.8k • written 14 months ago by • 0
2
votes
2
replies
1.4k
views
Graphing DEseq2 Normalized Counts using ggplot2
DESeq2 Normalization RNASeq
14 months ago jackafiore • 0
2
votes
3
replies
844
views
TMM normalization after RUVg correction
RUVSeq limma DifferentialExpression edgeR Normalization
updated 14 months ago by 68k • written 14 months ago by • 0
1
vote
3
replies
1.1k
views
Comparing relative expression of a conserved gene between distantly related species.
ComparativeGenomics Normalization RNASeq DESeq2
written 15 months ago by • 0
0
votes
1
reply
936
views
WGCNA Soft Power
Normalization DESeq2 Network RNASeqData
updated 15 months ago by ★ 4.8k • written 15 months ago by • 0
2
votes
4
replies
1.8k
views
Does EdgeR trimmed mean of M values (TMM) account for gene length?
Normalization edgeR RNASeq
15 months ago Sabiha ▴ 20
1
vote
1
reply
883
views
DESeq2 Normalization for QC Samples
DESeq2 Normalization
updated 15 months ago by 43k • written 15 months ago by • 0
2
votes
2
replies
3.1k
views
DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2 medianofratiostransformation StatisticalMethod Normalization dispersion
15 months ago Linton • 0
0
votes
0
replies
620
views
SomaticSignatures normalization for trinucleotide motifs in reference genome
Normalization SomaticSignatures
17 months ago vasily.dobrovolsky • 0
0
votes
6
replies
2.0k
views
DESeq2 Normalization with 4 Groups
Normalization RNASeq DESeq2
18 months ago erika.maldonado-rosado • 0
0
votes
0
replies
609
views
Dual species RNA-seq, Library size and normalization
Normalization edgeR RNASeq DESeq2
18 months ago Florian • 0
1
vote
11
replies
2.5k
views
DESeq2 gene length normalisation
Normalization DESeq2
updated 18 months ago by 43k • written 18 months ago by • 0
1
vote
4
replies
5.1k
views
How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray Preprocessing NimbleGen Normalization
written 2.4 years ago by • 0
1
vote
5
replies
1.7k
views
Does voom normalization quantile create difference in DGE genes when distribution of patients is similar (no big differences in quantiles)?
limmaGUI normalization limma voom Normalization
updated 21 months ago by 52k • written 22 months ago by • 0
0
votes
3
replies
972
views
Normalization of different input materials
Normalization DESeq2
updated 22 months ago by ★ 4.8k • written 22 months ago by ▴ 10
0
votes
2
replies
1.3k
views
Can VST-transformed community composition data be expressed as relative abundance?
vst relativeabundance Normalization DESeq2
23 months ago dwas • 0
5
votes
11
replies
6.6k
views
Visualization of negative log CPM values
Visualization Normalization ggplot2 edgeR
written 23 months ago by ▴ 20
0
votes
3
replies
1.1k
views
Is the gene-specific PCR efficiency a serious concern for intrasample comparisons in RNA-Seq?
RNA-Seq normalization PCR_efficiency bias intrasample_comparison
updated 23 months ago by 68k • written 23 months ago by • 0
1
vote
2
replies
1.5k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
2.0 years ago Abdul ▴ 20
2
votes
2
replies
1.0k
views
Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
2.1 years ago Abdul ▴ 20
1
vote
2
replies
901
views
RNA-Seq normalization of pre and post treatment groups
Normalization RNASeq
written 2.1 years ago by • 0
0
votes
2
replies
1.3k
views
Scaling and normalization by deconvolution of SMART-Seq 2 data
scran Clustering SingleCell Normalization
2.1 years ago Assa Yeroslaviz ★ 1.5k
1
vote
6
replies
2.7k
views
can negative value microarray matrix data analysed by limma directly
limma microarray normalization
updated 20 months ago by 52k • written 4.6 years ago by ▴ 20
2
votes
3
replies
3.3k
views
deseq2 normalization and statistical method
normalization deseq2 StatisticalMethod
updated 2.1 years ago by ★ 4.8k • written 2.1 years ago by ▴ 10
2
votes
1
reply
1.8k
views
deseq2 RLE normalization
RLE normalization deseq2
updated 2.1 years ago by ★ 4.8k • written 2.1 years ago by ▴ 10
0
votes
1
reply
1.1k
views
Using DESeq2 only for normalization
DESeq2 Normalization
updated 2.1 years ago by ★ 4.8k • written 2.1 years ago by • 0
0
votes
1
reply
661
views
processing samples with significantly different counts
DESeq2 Normalization
updated 2.1 years ago by ★ 4.8k • written 2.1 years ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: Intepretation of results by Tom • 0
[Locksmith Wombwell][1] I have been interested in using AUCell as a way to determine significantly enriched pathways in my single cell spat…
Comment: Gene Ontology (GO) Analysis by Tom • 0
[Locksmith near me][1] Hello, I'm learning about Gene Ontology analysis. I'm trying to understand the difference between the hyperGTest fun…
Comment: DiffBind; Error: No sites have activity greater than filter value by etiennedanis • 0
Same issue here as well. This is very weird because I never had this issue before. I started observing this issue with a new ATAC-seq da…
Comment: GSEA preranked analysis downstream of DEseq2 by Ajay • 0
`logFC * -log10(pval)` seems to be the pi-score proposed in this [paper][1] [1]: https://pmc.ncbi.nlm.nih.gov/articles/PMC3957066/
Comment: error in ChAMP loading file by janwilseo • 0
Any update on this post? I also had an issue with this. [erosion control](https://charlestonhydroseeding.com/)
Votes
Answer: DiffBind; Error: No sites have activity greater than filter value
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
Awards • All
Popular Question to Dario Strbenac ★ 1.6k
Popular Question to etiennedanis • 0
Popular Question to javier.ruizramirez • 0
Autobiographer to Paul Harrison ▴ 100
Popular Question to mohammedtoufiq91 ▴ 10
Locations • All
Switzerland, 3 minutes ago
Australia/Melbourne, 2 hours ago
WEHI, Melbourne, Australia, 3 hours ago
Pakistan, 3 hours ago
EMBL Heidelberg, 5 hours ago
Traffic: 662 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