Showing : Normalization • reset
0
votes
2
replies
792
views
gene detection across experiments
DESeq2 Normalization
21 days ago • updated 20 days ago Mara • 0
0
votes
3
replies
1.4k
views
RNA-seq: TPM batch effect correction
rnaseqDTU Normalization
updated 23 days ago by 68k • written 23 days ago by • 0
0
votes
5
replies
616
views
WGCNA
WGCNA Normalization RNASeq
written 5 months ago by • 0
0
votes
2
replies
429
views
Meffil: error in functional normalization function (Error in rg.to.mu(rg, probes))
methylationArrayAnalysis Normalization Epigenetics MethylationArrayData
5 months ago a.alkema • 0
6
votes
5
replies
909
views
How do I fix an odd voom plot in a combined dataset?
limma Normalization voom
updated 6 months ago by 68k • written 6 months ago by • 0
0
votes
0
replies
276
views
Lipidomics Barplot: raw values or non-log, lipidr-normalized values?
Normalization Lipidomics lipidr
7 months ago David R ▴ 90
3
votes
4
replies
1.0k
views
Limma- Print-tip loess normalisation-printer layout information does not match M row dimension
Normalization limma within-arraynormalisation Printerlayout
8 months ago dseauer • 0
1
vote
2
replies
1.2k
views
Consistent Decimals In Data After Antibody Array Background Correction Using Limma:nec Function
limma MicroarrayData Normalization
8 months ago Ai • 0
0
votes
0
replies
472
views
Diffbind: Cut&Run: E-coli spike-in
Normalization DiffBind
8 months ago kim • 0
0
votes
1
reply
777
views
Spike-in normalization method in ATACseq
sperm Drosophila_melanogaster ATACSeq Normalization SpikeIn
updated 8 months ago by ★ 4.9k • written 8 months ago by • 0
3
votes
4
replies
1.1k
views
Are transformed values from rlog /vst log2 normalized counts?
Normalization DESeq2 rlog vst
9 months ago Eva ▴ 10
0
votes
0
replies
461
views
Background normalization of Diffbind dba.normalize
Normalization DiffBind
9 months ago Young Boqin • 0
1
vote
1
reply
464
views
Normalization RNA-seq for multiple plates
Normalization DESeq2 RNASeqData edgeR
updated 9 months ago by ★ 4.9k • written 9 months ago by • 0
1
vote
5
replies
1.3k
views
RNASeq normlization for samples with global shift in gene expression
qsmooth DESeq2 limma Normalization
updated 11 months ago by 52k • written 11 months ago by • 0
0
votes
2
replies
573
views
Analysis of transcription inhibition with DESeq2
SpikeIn DESeq2 Normalization
written 11 months ago by • 0
1
vote
3
replies
1.7k
views
Combining two bulk RNA seq datasets
RNASeqData DESeq2 Normalization
13 months ago Tanvi • 0
2
votes
2
replies
773
views
Control group between 2 batches have different expression in RNAseq data
BatchQC BatchEffect rnaseqGene Normalization
updated 13 months ago by ▴ 10 • written 14 months ago by • 0
0
votes
2
replies
869
views
Normalisation using clinical traits in RNA seq using DESeq2
DESeq2 clinicaltraits Normalization batchnormalisation
14 months ago sukeshinik5 ▴ 20
0
votes
1
reply
644
views
normalization across different species for DESeq2 analysis
DESeq2 normalization Normalization acrossspecies
updated 14 months ago by 43k • written 14 months ago by • 0
0
votes
1
reply
636
views
normalization using Deseq2
DESeq2 rnaseqGene Normalization
updated 14 months ago by ★ 4.9k • written 14 months ago by • 0
2
votes
2
replies
1.5k
views
[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind Normalization
15 months ago Henry ▴ 10
1
vote
6
replies
1.5k
views
DESeq2 step-by-step Normalization then DGE separately & Normalization methods and switchability
DESeq2 Normalization
updated 15 months ago by 43k • written 15 months ago by • 0
0
votes
2
replies
799
views
edgeR analysis: glm functions and offset matrix
tximport edgeR Normalization
15 months ago Marianna ▴ 20
1
vote
4
replies
982
views
EDAseq to normalise for both gene-length and GC-content
norma EDASeq EDA Normalization
16 months ago samuel.channon • 0
0
votes
0
replies
544
views
TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
16 months ago Giovanni Calice ▴ 160
2
votes
1
reply
694
views
Normalization factors when there is a possible unidirectional expression
limma Normalization DifferentialExpression
updated 17 months ago by ★ 4.9k • written 17 months ago by • 0
2
votes
2
replies
1.6k
views
Graphing DEseq2 Normalized Counts using ggplot2
DESeq2 Normalization RNASeq
17 months ago jackafiore • 0
2
votes
3
replies
937
views
TMM normalization after RUVg correction
RUVSeq limma DifferentialExpression edgeR Normalization
updated 17 months ago by 68k • written 17 months ago by • 0
1
vote
3
replies
1.2k
views
Comparing relative expression of a conserved gene between distantly related species.
ComparativeGenomics Normalization RNASeq DESeq2
written 18 months ago by • 0
0
votes
1
reply
1.0k
views
WGCNA Soft Power
Normalization DESeq2 Network RNASeqData
updated 18 months ago by ★ 4.9k • written 18 months ago by • 0
2
votes
4
replies
2.0k
views
Does EdgeR trimmed mean of M values (TMM) account for gene length?
Normalization edgeR RNASeq
18 months ago Sabiha ▴ 20
1
vote
1
reply
950
views
DESeq2 Normalization for QC Samples
DESeq2 Normalization
updated 18 months ago by 43k • written 18 months ago by • 0
2
votes
2
replies
3.5k
views
DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2 medianofratiostransformation StatisticalMethod Normalization dispersion
18 months ago Linton • 0
0
votes
0
replies
709
views
SomaticSignatures normalization for trinucleotide motifs in reference genome
Normalization SomaticSignatures
20 months ago vasily.dobrovolsky • 0
0
votes
6
replies
2.1k
views
DESeq2 Normalization with 4 Groups
Normalization RNASeq DESeq2
21 months ago erika.maldonado-rosado • 0
0
votes
0
replies
654
views
Dual species RNA-seq, Library size and normalization
Normalization edgeR RNASeq DESeq2
21 months ago Florian • 0
1
vote
11
replies
2.7k
views
DESeq2 gene length normalisation
Normalization DESeq2
updated 21 months ago by 43k • written 21 months ago by • 0
1
vote
4
replies
5.5k
views
How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray Preprocessing NimbleGen Normalization
written 2.7 years ago by • 0
1
vote
5
replies
1.8k
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 2.0 years ago by 52k • written 2.1 years ago by • 0
0
votes
3
replies
1.0k
views
Normalization of different input materials
Normalization DESeq2
updated 2.1 years ago by ★ 4.9k • written 2.1 years ago by ▴ 10
0
votes
2
replies
1.4k
views
Can VST-transformed community composition data be expressed as relative abundance?
vst relativeabundance Normalization DESeq2
2.1 years ago dwas • 0
5
votes
11
replies
7.1k
views
Visualization of negative log CPM values
Visualization Normalization ggplot2 edgeR
written 2.2 years ago by ▴ 20
0
votes
3
replies
1.2k
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 2.2 years ago by 68k • written 2.2 years ago by • 0
1
vote
2
replies
1.6k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
2.3 years ago Abdul ▴ 20
2
votes
2
replies
1.1k
views
Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
2.3 years ago Abdul ▴ 20
1
vote
2
replies
946
views
RNA-Seq normalization of pre and post treatment groups
Normalization RNASeq
written 2.3 years ago by • 0
0
votes
2
replies
1.4k
views
Scaling and normalization by deconvolution of SMART-Seq 2 data
scran Clustering SingleCell Normalization
2.3 years ago Assa Yeroslaviz ★ 1.5k
1
vote
6
replies
2.9k
views
can negative value microarray matrix data analysed by limma directly
limma microarray normalization
updated 23 months ago by 52k • written 4.8 years ago by ▴ 20
2
votes
3
replies
3.5k
views
deseq2 normalization and statistical method
normalization deseq2 StatisticalMethod
updated 2.3 years ago by ★ 4.9k • written 2.3 years ago by ▴ 10
2
votes
1
reply
1.9k
views
deseq2 RLE normalization
RLE normalization deseq2
updated 2.3 years ago by ★ 4.9k • written 2.3 years ago by ▴ 10
50 results • Page 1 of 1
Recent ...
Replies
Comment: Bioinformatician in Core Facility (100%) by Piona • 0
https://goldblum.ch/knowledgebase/buy-a-swiss-shelf-company For anyone considering doing business in Switzerland, I came across a helpful r…
Comment: SeSAMe DMR for EPIC V2 by MargaretJDinan • 0
Note when playing [8 Ball Billiards][1], you need to aim at the target which is your group of balls to shoot. [1]: https://8ballbilliar…
Comment: DiffBind - question on the use of filtered or unfiltered input data by herrylauu0 • 0
Below is a detailed explanation of the considerations for using filtered versus [Sprunked][1] unfiltered input data in DiffBind, addressing…
Comment: EuroBioC2023 abstract submission closing soon! by Esperan • 0
Is EuroBioc2023 still happening? https://openreview.net/group?id=bioconductor.org/EuroBioC/2023/Conference/ [slope](https://slope-play.com)
Answer: Using offset in edgeR by Gordon Smyth 52k
Did you convert the input counts to log scale before setting the offset? Setting linear counts as an offset wouldn't make sense. However, I…
Votes
A: dream vignette says limma-voom repeated measures two-group comparison needs two
A: time series, block by patient, between and within comparisons limma-voom
Answer: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in
Answer: Non-monotonic voomByGroup plot in Xenium data
Comment: competitive enrichment test yields too few significant results, self-contained t
Awards • All
Popular Question to shepherl 4.2k
Popular Question to richardallenfriedmanbrooklyn ▴ 30
Popular Question to cossardg ▴ 10
Popular Question to Ben ▴ 10
Popular Question to 17506483572 ▴ 10
Locations • All
United States, 1 minute ago
United States, 29 minutes ago
United Kingdom, 1 hour ago
WEHI, Melbourne, Australia, 1 hour ago
United States, 2 hours ago
Traffic: 392 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