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<prev • 354 results • page 1 of 12 • next >
4
votes
1
answer
111
views
1
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EdgeR for single cell differential expression analysis
single-cell edger differential expression written 4 days ago by kvshamsudheen • 30
16
votes
4
answers
183
views
5 follow
4
answers
Interpretation of RNA seq pipeline in a paper
R rna-seq edger written 4 days ago by n.anuragsharma • 10 • updated 4 days ago by colin.kern • 690
0
votes
1
answer
50
views
1
answer
edgeR pairwise comparison
deseq2 edger written 4 days ago by rykerklie7 • 0
0
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0
answers
65
views
0
answers
Obtaining input matrix from Kallisto for later downstream analysis with Deseq2 or EdgeR.
deseq2 kallisto rna-seq edger written 5 days ago by obuhovadarina • 0
2
votes
1
answer
51
views
1
answer
Finding DEGenes taking into account the DEG of a compared control condition
R sgrna limma rna-seq edger written 9 days ago by mcalleja • 80
1
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0
answers
57
views
0
answers
Converting REFSeq IDs to Entrez IDs for KEGG analysis - "geneid of incorrect length"?
R deseq kegg edger rna-seq written 12 days ago by saw44 • 10 • updated 12 days ago by Ashastry • 60
0
votes
1
answer
98
views
1
answer
Limma/edgeR or other for metagenomic (non-RNA) data?
metagenomics paired data edger voom written 20 days ago by gaio.transposon • 0 • updated 20 days ago by Fabio Marroni • 2.4k
10
votes
2
answers
3.6k
views
9 follow
2
answers
TMM or TPM normalized counts for visualization?
normalization tpm edger tmm written 17 months ago by sam.vanc70 • 30 • updated 23 days ago by simplitia • 30
4
votes
2
answers
97
views
2
answers
Remove glmLRT rows under a certain pValue
pvalue R glm qlf edger written 6 weeks ago by williams.damon26 • 10 • updated 6 weeks ago by Gordon Smyth • 1.1k
0
votes
0
answers
156
views
0
answers
Find most upregulated genes in one library?
bioinformatics expression rsubread rna-seq edger written 6 weeks ago by williams.damon26 • 10
12
votes
3
answers
274
views
6 follow
3
answers
deseq2 or edgeR
deseq2 rna-seq edger written 8 weeks ago by yusuf • 30 • updated 8 weeks ago by Gordon Smyth • 1.1k
4
votes
2
answers
166
views
2
answers
Calculate p-value for experiment group with replicates, while control group without replicates
R deseq2 rna-seq edger written 8 weeks ago by zhangdengwei • 40 • updated 8 weeks ago by Nicolas Rosewick ♦ 8.4k
5
votes
1
answer
759
views
5 follow
1
answer
DESeq2 (or EdgeR) Exploratory Analysis with no Replicates
deseq2 edger rna-seq written 6 months ago by gabriel.jabud • 20 • updated 9 weeks ago by Konstantinos Yeles • 70
2
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0
answers
172
views
0
answers
EdgeR without replicate?
differential' edger corset rna-seq written 9 weeks ago by 1234anjalianjali1234 • 30
2
votes
0
answers
198
views
0
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edgeR negative bionomial error in without replicate data?
R rna-seq edger no-replicate written 9 weeks ago by 1234anjalianjali1234 • 30 • updated 9 weeks ago by ATpoint ♦ 25k
2
votes
2
answers
146
views
2
answers
Extracting data from edgeR R package
R edger written 10 weeks ago by Sara • 50 • updated 10 weeks ago by zx8754 ♦ 8.4k
2
votes
0
answers
312
views
0
answers
Converting Ensembl gene IDs to Entrez IDs for indexing gene set collections for doing "Ensemble of Gene Set Enrichment Analyses"
egsea biomart rna-seq edger limma written 11 weeks ago by F. Golestan • 20 • updated 11 weeks ago by RamRS ♦ 24k
5
votes
1
answer
221
views
1
answer
RNA-seq analysis using RUVSeq: am I doing it right?
degs ruvseq rna-seq edger written 11 weeks ago by ankuresearch • 10 • updated 11 weeks ago by Charles Warden ♦ 7.3k
2
votes
1
answer
180
views
1
answer
Ensemble of Gene Set Enrichment Analyses (EGSEA) for count matrix generated by DESeq2 and edgeR packages
egsea deseq2 rna-seq gsea edger written 3 months ago by F. Golestan • 20 • updated 3 months ago by h.mon ♦ 28k
2
votes
1
answer
377
views
5 follow
1
answer
How to normalized TPM with TMM method?
tpm rna-seq edger tmm written 4 months ago by xiaoguang • 10 • updated 3 months ago by Gordon Smyth • 1.1k
3
votes
1
answer
275
views
1
answer
analysis of multiple batches and multiple treatment conditions in scRNA-seq
scrna-seq deseq2 combat limma edger written 3 months ago by Bogdan • 880 • updated 3 months ago by sofiagreen72211 • 30
2
votes
1
answer
901
views
1
answer
edgeR : How to test differential exon usage on case/control study across all time points when accounting for the within subject variability?
model time-course model.matrix edger lrt written 2.3 years ago by sarin.heikki.v • 10 • updated 3 months ago by h.mon ♦ 28k
1
vote
0
answers
145
views
0
answers
DEG tool for just 2 pair end data
deseq2 limma rna-seq edger written 3 months ago by sabaghianamir70 • 10 • updated 3 months ago by RamRS ♦ 24k
14
votes
2
answers
375
views
6 follow
2
answers
edgeR DGElist Error: Negative counts not allowed.
edger written 3 months ago by ma23 • 40 • updated 3 months ago by Gordon Smyth • 1.1k
2
votes
0
answers
1.2k
views
0
answers
Why DESeq2 filter and remove genes with high count?
gene R deseq2 edger written 3.1 years ago by star • 190 • updated 3 months ago by Biostar ♦♦ 20
0
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0
answers
116
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0
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Model Matrix Interacting model
next-gen rna-seq edger model/design matrix written 3 months ago by akh22 • 40
1
vote
1
answer
212
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1
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comparing kallisto rsem , makind sd plot and corelation table /graph
rsem deseq2 kallisto edger rnaseqcomp written 4 months ago by yusuf • 30 • updated 4 months ago by WouterDeCoster ♦ 42k
18
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2
answers
249
views
7 follow
2
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Doing differential gene expression without knowing sample classes
deseq2 rna-seq edger written 4 months ago by A • 3.6k
1
vote
1
answer
232
views
1
answer
Is calcuNormFactors necessary in the calculation of RPKM?
rpkm rna-seq edger written 4 months ago by wangdp123 • 190 • updated 4 months ago by ATpoint ♦ 25k
1
vote
1
answer
1.1k
views
1
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diffSplice: Error in exon.genes[o, , drop = FALSE] : incorrect number of dimensions
exon diffsplice edger voom written 2.3 years ago by sarin.heikki.v • 10 • updated 4 months ago by Gordon Smyth • 1.1k
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