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Comment:
Comment: DESeq2: Gene is DEG in one experiment but not in the other depite similar baseMe
11 months ago
ATpoint
★ 5.0k
0
votes
1
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1.3k
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Comment:
Comment: DESeq2: Gene is DEG in one experiment but not in the other depite similar baseMe
11 months ago
ATpoint
★ 5.0k
1
vote
0
replies
3.4k
views
Comment:
Comment: What type of counts data to import for performing Isoform analysis in edgeR
11 months ago
ATpoint
★ 5.0k
2
votes
1
reply
1.3k
views
Answer:
Answer: RSubread output significantly different from bash Subread output
11 months ago
ATpoint
★ 5.0k
1
vote
1
reply
3.4k
views
Comment:
Comment: What type of counts data to import for performing Isoform analysis in edgeR
11 months ago
ATpoint
★ 5.0k
1
vote
1
reply
3.4k
views
Answer:
Answer: What type of counts data to import for performing Isoform analysis in edgeR
11 months ago
ATpoint
★ 5.0k
0
votes
0
replies
673
views
Comment:
Comment: WGCNA with TPM tables
11 months ago
ATpoint
★ 5.0k
0
votes
0
replies
412
views
Comment:
Comment: eRNAs count
12 months ago
ATpoint
★ 5.0k
1
vote
0
replies
513
views
Comment:
Comment: Harmonizing Gene Annotations for Meta-Analysis of GSE68183 and GSE80178
12 months ago
ATpoint
★ 5.0k
0
votes
0
replies
615
views
Answer:
Answer: DESeq2 rerun returns different results
12 months ago
ATpoint
★ 5.0k
1
vote
0
replies
1.1k
views
Answer:
Answer: Handling biological replicates in DESeq2
12 months ago
ATpoint
★ 5.0k
0
votes
1
reply
1.6k
views
Answer:
Answer: Volcano plot has many values around zero
12 months ago
ATpoint
★ 5.0k
2
votes
1
reply
1.3k
views
Comment:
Comment: DESeq Input from Salmon + tximport/tximeta
12 months ago
ATpoint
★ 5.0k
0
votes
0
replies
1.6k
views
Comment:
Comment: Supercells with Basilisk fails for dtype('float64') to dtype('int64') conversion
12 months ago
ATpoint
★ 5.0k
0
votes
0
replies
729
views
Answer:
Answer: Average expression of genes across replicates
12 months ago
ATpoint
★ 5.0k
0
votes
0
replies
923
views
Answer:
Answer: Spike-in normalization method in ATACseq
12 months ago
ATpoint
★ 5.0k
0
votes
0
replies
1.8k
views
Comment:
Comment: New to Deseq2 - DEG questions / MA plot
13 months ago
ATpoint
★ 5.0k
1
vote
1
reply
1.3k
views
Answer:
Answer: Analysis of large RNA-Seq Datasets
13 months ago
ATpoint
★ 5.0k
0
votes
0
replies
487
views
Answer:
Answer: how to extract expression matrix post deseq2
13 months ago
ATpoint
★ 5.0k
1
vote
0
replies
865
views
Answer:
Answer: Automatically generate contrasts from a model matrix / formula
13 months ago
ATpoint
★ 5.0k
1
vote
0
replies
1.3k
views
Comment:
Comment: Mostly increased counts in differentially accessible peaks using DESeq2
13 months ago
ATpoint
★ 5.0k
0
votes
1
reply
535
views
Answer:
Answer: Using Normalized Counts in DESeq2
13 months ago
ATpoint
★ 5.0k
0
votes
1
reply
1.5k
views
Comment:
Comment: What should be the normalization protocol for RNA seq data for WGCNA?
13 months ago
ATpoint
★ 5.0k
1
vote
1
reply
1.5k
views
Answer:
Answer: What should be the normalization protocol for RNA seq data for WGCNA?
13 months ago
ATpoint
★ 5.0k
0
votes
0
replies
990
views
Comment:
Comment: How to control batch effect if Group and batch are same?
13 months ago
ATpoint
★ 5.0k
0
votes
0
replies
1.3k
views
Comment:
Comment: Mostly increased counts in differentially accessible peaks using DESeq2
13 months ago
ATpoint
★ 5.0k
5
votes
1
reply
990
views
Answer:
Answer: How to control batch effect if Group and batch are same?
13 months ago
ATpoint
★ 5.0k
1
vote
0
replies
671
views
Comment:
Comment: Normalization RNA-seq for multiple plates
13 months ago
ATpoint
★ 5.0k
1
vote
0
replies
589
views
Answer:
Answer: DEseq 2 LFC shrinkage with apeglm in single-cell pseudobulk: strange volcano plo
13 months ago
ATpoint
★ 5.0k
0
votes
1
reply
1.8k
views
Answer:
Answer: New to Deseq2 - DEG questions / MA plot
13 months ago
ATpoint
★ 5.0k
1
vote
1
reply
1.6k
views
Comment:
Comment: Size factor normalized counts for between sample comparisons - correct?
14 months ago
ATpoint
★ 5.0k
1
vote
1
reply
1.6k
views
Comment:
Comment: Size factor normalized counts for between sample comparisons - correct?
14 months ago
ATpoint
★ 5.0k
0
votes
1
reply
672
views
Answer:
Answer: Questions in Regards to LFC shrinkage in DSeq2
14 months ago
ATpoint
★ 5.0k
1
vote
0
replies
818
views
Comment:
Comment: Gene filtering in DESeq2
14 months ago
ATpoint
★ 5.0k
1
vote
0
replies
488
views
Answer:
Answer: Deseq2 - differenc in results
14 months ago
ATpoint
★ 5.0k
3
votes
3
replies
939
views
voom does not seem to properly correct for library size
limma
updated 14 months ago by
Gordon Smyth
53k • written 14 months ago by
ATpoint
★ 5.0k
0
votes
0
replies
939
views
Comment:
Comment: voom does not seem to properly correct for library size
14 months ago
ATpoint
★ 5.0k
0
votes
1
reply
1.1k
views
Answer:
Answer: More significant genes after lfcShrink in DEseq2?
14 months ago
ATpoint
★ 5.0k
1
vote
1
reply
1.4k
views
Comment:
Comment: RNASeq normlization for samples with global shift in gene expression
14 months ago
ATpoint
★ 5.0k
2
votes
0
replies
1.5k
views
Answer:
Answer: DESeq2 is it OK to scale transformed data in order to plot heatmaps?
15 months ago
ATpoint
★ 5.0k
2
votes
1
reply
872
views
Answer:
Answer: Why is the inclusion of RUVs not reflected in the EDA plots produced from normal
15 months ago
ATpoint
★ 5.0k
0
votes
0
replies
1.4k
views
Comment:
Comment: DiffBind full library size not reliable
15 months ago
ATpoint
★ 5.0k
1
vote
0
replies
1.0k
views
Comment:
Comment: Optimizing CPM Calculation for Varied RNA-seq Data
15 months ago
ATpoint
★ 5.0k
0
votes
2
replies
1.4k
views
Comment:
Comment: DiffBind full library size not reliable
15 months ago
ATpoint
★ 5.0k
0
votes
1
reply
1.4k
views
Comment:
Comment: DiffBind full library size not reliable
15 months ago
ATpoint
★ 5.0k
0
votes
1
reply
1.4k
views
Comment:
Comment: DiffBind full library size not reliable
15 months ago
ATpoint
★ 5.0k
0
votes
0
replies
1.1k
views
Answer:
Answer: Validity of SingleR with very small bulk RNAseq reference
15 months ago
ATpoint
★ 5.0k
2
votes
2
replies
2.9k
views
Answer:
Answer: Plot PCA with ellipses using ggplot
15 months ago
ATpoint
★ 5.0k
0
votes
0
replies
1.3k
views
Comment:
Comment: Recount3: PCR duplicates
15 months ago
ATpoint
★ 5.0k
0
votes
0
replies
975
views
Comment:
Comment: Error when trying to do different pairwise comparisons and lfcshrink than what's
16 months ago
ATpoint
★ 5.0k
1,097 results • Page
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