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Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
NanoStringNCTools limma ExpressionData RNASeq edgeR
7 days ago • updated 6 days ago mohammedtoufiq91 ▴ 10
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151
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Answer: Answer: Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
6 days ago mohammedtoufiq91 ▴ 10
0
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0
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1.4k
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Comment: Comment: Question about RNAseq analysis in EdgeR to identify common and donor specific di
10 months ago mohammedtoufiq91 ▴ 10
2
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5
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1.4k
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Question about RNAseq analysis in EdgeR to identify common and donor specific differentially expressed genes
R edgeR RNASeq
10 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.4k
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Comment: Comment: Question about RNAseq analysis in EdgeR to identify common and donor specific di
10 months ago mohammedtoufiq91 ▴ 10
0
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0
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868
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Comment: Comment: Question on constructing design matrix and defining contrasts for analysis
12 months ago mohammedtoufiq91 ▴ 10
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0
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868
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Comment: Comment: Question on constructing design matrix and defining contrasts for analysis
12 months ago mohammedtoufiq91 ▴ 10
3
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6
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868
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Question on constructing design matrix and defining contrasts for analysis
wgcna DESeq2 edgeR limma design
updated 12 months ago by 50k • written 12 months ago by ▴ 10
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2
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868
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Comment: Comment: Question on constructing design matrix and defining contrasts for analysis
updated 12 months ago by 50k • written 12 months ago by ▴ 10
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1
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1.3k
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Comment: Comment: Question about setting threshold using filtering by expression on genes in edgeR
12 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.3k
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Comment: Comment: Question about setting threshold using filtering by expression on genes in edgeR
12 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.3k
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Comment: Comment: Question about setting threshold using filtering by expression on genes in edgeR
12 months ago mohammedtoufiq91 ▴ 10
5
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7
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1.3k
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Question about setting threshold using filtering by expression on genes in edgeR
filtering RNA-Seq CPM edgeR filterByExpr
updated 12 months ago by 50k • written 12 months ago by ▴ 10
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0
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1.8k
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Comment: Comment: Question about filter by expression (filterByExpr) in edgeR
14 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.8k
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Comment: Comment: Question about filter by expression (filterByExpr) in edgeR
14 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.8k
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Comment: Comment: Question about filter by expression (filterByExpr) in edgeR
14 months ago mohammedtoufiq91 ▴ 10
0
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0
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1.8k
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Comment: Comment: Question about filter by expression (filterByExpr) in edgeR
14 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.8k
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Comment: Comment: Question about filter by expression (filterByExpr) in edgeR
14 months ago mohammedtoufiq91 ▴ 10
3
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9
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1.8k
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Question about filter by expression (filterByExpr) in edgeR
CPM filterByExpr edgeR design model.matrix
14 months ago mohammedtoufiq91 ▴ 10
0
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0
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677
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Comment: Comment: Question about avereps function of limma
14 months ago mohammedtoufiq91 ▴ 10
2
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2
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677
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Question about avereps function of limma
avereps probes average limma Microarray
updated 14 months ago by 50k • written 14 months ago by ▴ 10
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0
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1.4k
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Comment: Comment: Error in running Dispersion estimation analysis in EdgeR
15 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.4k
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Comment: Comment: Error in running Dispersion estimation analysis in EdgeR
15 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.4k
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Comment: Comment: Error in running Dispersion estimation analysis in EdgeR
15 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.4k
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Comment: Comment: Error in running Dispersion estimation analysis in EdgeR
15 months ago mohammedtoufiq91 ▴ 10
6
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11
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1.4k
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Error in running Dispersion estimation analysis in EdgeR
edgeR DifferentialExpression limma design RNASeq
15 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.4k
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Comment: Comment: Error in running Dispersion estimation analysis in EdgeR
15 months ago mohammedtoufiq91 ▴ 10
0
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0
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1.8k
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Comment: Comment: Which input file is used for DGEList in EgdeR?
15 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.8k
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Comment: Comment: Which input file is used for DGEList in EgdeR?
15 months ago mohammedtoufiq91 ▴ 10
6
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10
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1.8k
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Which input file is used for DGEList in EgdeR?
salmon edgeR tximport nf-core gene_counts
updated 5 weeks ago by • 0 • written 15 months ago by ▴ 10
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1
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3.4k
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Comment: Comment: How to identify top most variable genes from log2 normalized data?
17 months ago mohammedtoufiq91 ▴ 10
0
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1
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3.4k
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Comment: Comment: How to identify top most variable genes from log2 normalized data?
17 months ago mohammedtoufiq91 ▴ 10
2
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5
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3.4k
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How to identify top most variable genes from log2 normalized data?
supervised edgeR variance RNASeq heatmaps
updated 15 months ago by 50k • written 17 months ago by ▴ 10
0
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0
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1.0k
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Comment: Comment: Question about making Contrasts for comparisons and assignment of values
17 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.0k
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Comment: Comment: Question about making Contrasts for comparisons and assignment of values
17 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.0k
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Comment: Comment: Question about making Contrasts for comparisons and assignment of values
17 months ago mohammedtoufiq91 ▴ 10
3
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6
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1.0k
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Question about making Contrasts for comparisons and assignment of values
edgeR contrasts limma design model.matrix
17 months ago mohammedtoufiq91 ▴ 10
0
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0
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1.8k
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Comment: Comment: How to interpret Histogram of average log2 CPM filtering in EdgeR?
17 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.8k
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Comment: Comment: How to interpret Histogram of average log2 CPM filtering in EdgeR?
17 months ago mohammedtoufiq91 ▴ 10
0
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1
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1.8k
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Comment: Comment: How to interpret Histogram of average log2 CPM filtering in EdgeR?
17 months ago mohammedtoufiq91 ▴ 10
5
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6
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1.8k
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How to interpret Histogram of average log2 CPM filtering in EdgeR?
CPM filterByExpr edgeR histogram rowsums
17 months ago mohammedtoufiq91 ▴ 10
0
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0
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804
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Comment: Comment: Extracting specific comparisons after fitting model in EdgeR
17 months ago mohammedtoufiq91 ▴ 10
1
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2
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804
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Extracting specific comparisons after fitting model in EdgeR
edgeR limma design RNASeq model.matrix
18 months ago • updated 17 months ago mohammedtoufiq91 ▴ 10
0
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0
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803
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Comment: Comment: Does negative corfit$consensus cause issues while fitting a model in limma
18 months ago mohammedtoufiq91 ▴ 10
1
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2
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803
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Does negative corfit$consensus cause issues while fitting a model in limma
limma R design model.matrix
18 months ago mohammedtoufiq91 ▴ 10
0
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0
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1.9k
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Comment: Comment: Question on performing filtering by gene expression on a normalized matrix in li
18 months ago mohammedtoufiq91 ▴ 10
0
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0
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1.3k
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Comment: Comment: Error while reading rsem files in tximport
18 months ago mohammedtoufiq91 ▴ 10
0
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0
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1.3k
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Comment: Comment: Error while reading rsem files in tximport
18 months ago mohammedtoufiq91 ▴ 10
2
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3
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1.3k
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Error while reading rsem files in tximport
DESeq2 tximport rsem RNASeq tximportData
18 months ago mohammedtoufiq91 ▴ 10
0
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0
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3.6k
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Comment: Comment: Possibility of using TPM or FPKM values in edgeR for differential expression ana
18 months ago mohammedtoufiq91 ▴ 10
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