Showing : normalization • reset
0
votes
2
replies
926
views
gene detection across experiments
DESeq2 Normalization
3 months ago Mara • 0
0
votes
3
replies
1.6k
views
RNA-seq: TPM batch effect correction
rnaseqDTU Normalization
updated 3 months ago by 68k • written 3 months ago by • 0
0
votes
5
replies
718
views
WGCNA
WGCNA Normalization RNASeq
written 7 months ago by • 0
0
votes
2
replies
483
views
Meffil: error in functional normalization function (Error in rg.to.mu(rg, probes))
methylationArrayAnalysis Normalization Epigenetics MethylationArrayData
8 months ago a.alkema • 0
6
votes
5
replies
1.0k
views
How do I fix an odd voom plot in a combined dataset?
limma Normalization voom
updated 9 months ago by 68k • written 9 months ago by • 0
0
votes
0
replies
336
views
Lipidomics Barplot: raw values or non-log, lipidr-normalized values?
Normalization Lipidomics lipidr
10 months ago David R ▴ 90
3
votes
4
replies
1.1k
views
Limma- Print-tip loess normalisation-printer layout information does not match M row dimension
Normalization limma within-arraynormalisation Printerlayout
11 months ago dseauer • 0
1
vote
2
replies
1.3k
views
Consistent Decimals In Data After Antibody Array Background Correction Using Limma:nec Function
limma MicroarrayData Normalization
11 months ago Ai • 0
0
votes
0
replies
530
views
Diffbind: Cut&Run: E-coli spike-in
Normalization DiffBind
11 months ago kim • 0
0
votes
1
reply
885
views
Spike-in normalization method in ATACseq
sperm Drosophila_melanogaster ATACSeq Normalization SpikeIn
updated 11 months ago by ★ 5.0k • written 11 months ago by • 0
3
votes
4
replies
1.2k
views
Are transformed values from rlog /vst log2 normalized counts?
Normalization DESeq2 rlog vst
12 months ago Eva ▴ 10
0
votes
0
replies
547
views
Background normalization of Diffbind dba.normalize
Normalization DiffBind
12 months ago Young Boqin • 0
1
vote
1
reply
542
views
Normalization RNA-seq for multiple plates
Normalization DESeq2 RNASeqData edgeR
updated 12 months ago by ★ 5.0k • written 12 months ago by • 0
1
vote
5
replies
1.4k
views
RNASeq normlization for samples with global shift in gene expression
qsmooth DESeq2 limma Normalization
updated 13 months ago by 53k • written 13 months ago by • 0
0
votes
2
replies
641
views
Analysis of transcription inhibition with DESeq2
SpikeIn DESeq2 Normalization
written 14 months ago by • 0
1
vote
3
replies
1.8k
views
Combining two bulk RNA seq datasets
RNASeqData DESeq2 Normalization
16 months ago Tanvi • 0
2
votes
2
replies
838
views
Control group between 2 batches have different expression in RNAseq data
BatchQC BatchEffect rnaseqGene Normalization
updated 16 months ago by ▴ 10 • written 17 months ago by • 0
0
votes
2
replies
924
views
Normalisation using clinical traits in RNA seq using DESeq2
DESeq2 clinicaltraits Normalization batchnormalisation
16 months ago sukeshinik5 ▴ 20
0
votes
1
reply
719
views
normalization across different species for DESeq2 analysis
DESeq2 normalization Normalization acrossspecies
updated 17 months ago by 43k • written 17 months ago by • 0
0
votes
1
reply
684
views
normalization using Deseq2
DESeq2 rnaseqGene Normalization
updated 17 months ago by ★ 5.0k • written 17 months ago by • 0
2
votes
2
replies
1.7k
views
[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind Normalization
18 months ago Henry ▴ 10
1
vote
6
replies
1.6k
views
DESeq2 step-by-step Normalization then DGE separately & Normalization methods and switchability
DESeq2 Normalization
updated 18 months ago by 43k • written 18 months ago by • 0
0
votes
2
replies
889
views
edgeR analysis: glm functions and offset matrix
tximport edgeR Normalization
18 months ago Marianna ▴ 20
1
vote
4
replies
1.1k
views
EDAseq to normalise for both gene-length and GC-content
norma EDASeq EDA Normalization
19 months ago samuel.channon • 0
0
votes
0
replies
593
views
TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
19 months ago Giovanni Calice ▴ 160
2
votes
1
reply
758
views
Normalization factors when there is a possible unidirectional expression
limma Normalization DifferentialExpression
updated 20 months ago by ★ 5.0k • written 20 months ago by • 0
2
votes
2
replies
1.7k
views
Graphing DEseq2 Normalized Counts using ggplot2
DESeq2 Normalization RNASeq
20 months ago jackafiore • 0
2
votes
3
replies
1.0k
views
TMM normalization after RUVg correction
RUVSeq limma DifferentialExpression edgeR Normalization
updated 20 months ago by 68k • written 20 months ago by • 0
1
vote
3
replies
1.3k
views
Comparing relative expression of a conserved gene between distantly related species.
ComparativeGenomics Normalization RNASeq DESeq2
written 20 months ago by • 0
0
votes
1
reply
1.1k
views
WGCNA Soft Power
Normalization DESeq2 Network RNASeqData
updated 20 months ago by ★ 5.0k • written 20 months ago by • 0
2
votes
4
replies
2.1k
views
Does EdgeR trimmed mean of M values (TMM) account for gene length?
Normalization edgeR RNASeq
21 months ago Sabiha ▴ 20
1
vote
1
reply
999
views
DESeq2 Normalization for QC Samples
DESeq2 Normalization
updated 21 months ago by 43k • written 21 months ago by • 0
2
votes
2
replies
3.6k
views
DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2 medianofratiostransformation StatisticalMethod Normalization dispersion
21 months ago Linton • 0
0
votes
0
replies
753
views
SomaticSignatures normalization for trinucleotide motifs in reference genome
Normalization SomaticSignatures
23 months ago vasily.dobrovolsky • 0
0
votes
6
replies
2.3k
views
DESeq2 Normalization with 4 Groups
Normalization RNASeq DESeq2
23 months ago erika.maldonado-rosado • 0
0
votes
0
replies
705
views
Dual species RNA-seq, Library size and normalization
Normalization edgeR RNASeq DESeq2
24 months ago Florian • 0
1
vote
11
replies
2.9k
views
DESeq2 gene length normalisation
Normalization DESeq2
updated 2.0 years ago by 43k • written 2.0 years ago by • 0
1
vote
4
replies
5.8k
views
How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray Preprocessing NimbleGen Normalization
written 2.9 years ago by • 0
1
vote
5
replies
1.9k
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 2.3 years ago by 53k • written 2.3 years ago by • 0
0
votes
3
replies
1.1k
views
Normalization of different input materials
Normalization DESeq2
updated 2.3 years ago by ★ 5.0k • written 2.3 years ago by ▴ 10
0
votes
2
replies
1.5k
views
Can VST-transformed community composition data be expressed as relative abundance?
vst relativeabundance Normalization DESeq2
2.4 years ago dwas • 0
5
votes
11
replies
7.3k
views
Visualization of negative log CPM values
Visualization Normalization ggplot2 edgeR
written 2.4 years ago by ▴ 20
0
votes
3
replies
1.3k
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 2.4 years ago by 68k • written 2.4 years ago by • 0
1
vote
2
replies
1.7k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
2.5 years ago Abdul ▴ 20
2
votes
2
replies
1.2k
views
Question about transforming log expression values to antilog values in limma
IlluminaChip limma AffymetrixChip Normalization Microarray
2.5 years ago Abdul ▴ 20
1
vote
2
replies
982
views
RNA-Seq normalization of pre and post treatment groups
Normalization RNASeq
written 2.5 years ago by • 0
0
votes
2
replies
1.6k
views
Scaling and normalization by deconvolution of SMART-Seq 2 data
scran Clustering SingleCell Normalization
2.5 years ago Assa Yeroslaviz ★ 1.5k
1
vote
6
replies
3.0k
views
can negative value microarray matrix data analysed by limma directly
limma microarray normalization
updated 2.2 years ago by 53k • written 5.1 years ago by ▴ 20
2
votes
3
replies
3.6k
views
deseq2 normalization and statistical method
normalization deseq2 StatisticalMethod
updated 2.6 years ago by ★ 5.0k • written 2.6 years ago by ▴ 10
2
votes
1
reply
1.9k
views
deseq2 RLE normalization
RLE normalization deseq2
updated 2.6 years ago by ★ 5.0k • written 2.6 years ago by ▴ 10
1,761 results • Page 1 of 36
Recent ...
Replies
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by umairmugal82 • 0
When accuracy matters in academic assessment, nothing should be left to chance. [Accurate grading made simple on EasyGrader.net][1] ensures…
Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
Awards • All
Popular Question to ubjw24 • 0
Popular Question to Gordon Smyth 53k
Popular Question to Hervé Pagès 16k
Popular Question to shepherl 4.2k
Popular Question to Michael Love 43k
Locations • All
Estonia, 21 minutes ago
United States, 1 hour ago
United States, 1 hour ago
The Netherlands, 1 hour ago
Ireland, 1 hour ago
Traffic: 480 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