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140
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Answer: Answer: New to Deseq2 - DEG questions / MA plot
2 days ago ATpoint ★ 4.4k
1
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1
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629
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Comment: Comment: Size factor normalized counts for between sample comparisons - correct?
4 weeks ago • updated 29 days ago ATpoint ★ 4.4k
1
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1
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629
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Comment: Comment: Size factor normalized counts for between sample comparisons - correct?
4 weeks ago ATpoint ★ 4.4k
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1
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234
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Answer: Answer: Questions in Regards to LFC shrinkage in DSeq2
4 weeks ago ATpoint ★ 4.4k
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339
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Comment: Comment: Gene filtering in DESeq2
4 weeks ago ATpoint ★ 4.4k
1
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0
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231
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Answer: Answer: Deseq2 - differenc in results
4 weeks ago ATpoint ★ 4.4k
3
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3
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346
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voom does not seem to properly correct for library size
limma
updated 4 weeks ago by 51k • written 4 weeks ago by ★ 4.4k
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346
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Comment: Comment: voom does not seem to properly correct for library size
4 weeks ago ATpoint ★ 4.4k
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1
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367
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Answer: Answer: More significant genes after lfcShrink in DEseq2?
5 weeks ago ATpoint ★ 4.4k
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1
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660
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Comment: Comment: RNASeq normlization for samples with global shift in gene expression
5 weeks ago ATpoint ★ 4.4k
2
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296
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Answer: Answer: DESeq2 is it OK to scale transformed data in order to plot heatmaps?
6 weeks ago ATpoint ★ 4.4k
2
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1
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395
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Answer: Answer: Why is the inclusion of RUVs not reflected in the EDA plots produced from normal
6 weeks ago ATpoint ★ 4.4k
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376
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Answer: Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
7 weeks ago ATpoint ★ 4.4k
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0
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567
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Comment: Comment: DiffBind full library size not reliable
7 weeks ago ATpoint ★ 4.4k
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0
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440
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Comment: Comment: Optimizing CPM Calculation for Varied RNA-seq Data
7 weeks ago ATpoint ★ 4.4k
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2
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567
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Comment: Comment: DiffBind full library size not reliable
7 weeks ago ATpoint ★ 4.4k
0
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1
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567
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Comment: Comment: DiffBind full library size not reliable
7 weeks ago ATpoint ★ 4.4k
0
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1
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567
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Comment: Comment: DiffBind full library size not reliable
7 weeks ago ATpoint ★ 4.4k
0
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0
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485
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Answer: Answer: Validity of SingleR with very small bulk RNAseq reference
8 weeks ago ATpoint ★ 4.4k
2
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2
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776
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Answer: Answer: Plot PCA with ellipses using ggplot
8 weeks ago ATpoint ★ 4.4k
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0
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893
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Comment: Comment: Recount3: PCR duplicates
9 weeks ago ATpoint ★ 4.4k
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0
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474
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Comment: Comment: Error when trying to do different pairwise comparisons and lfcshrink than what's
9 weeks ago ATpoint ★ 4.4k
0
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1
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474
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Answer: Answer: Error when trying to do different pairwise comparisons and lfcshrink than what's
9 weeks ago ATpoint ★ 4.4k
0
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0
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301
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Answer: Answer: How to rank DEG for GSEA using DEseq2 result ?
10 weeks ago ATpoint ★ 4.4k
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235
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Answer: Answer: Run DEXSeq successfully but got a result that padj==1 in all genes
10 weeks ago ATpoint ★ 4.4k
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0
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284
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Comment: Comment: output from RAIN doesn't look rhythmic
10 weeks ago ATpoint ★ 4.4k
0
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0
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228
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Answer: Answer: unreal negative log2fc values
12 weeks ago ATpoint ★ 4.4k
0
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1
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376
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Comment: Comment: How to search Pubmed Central or other fulltext literature base using regex?
12 weeks ago ATpoint ★ 4.4k
0
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2
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611
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Comment: Comment: Research Project - Expanding search funtionality on the GEO database
3 months ago ATpoint ★ 4.4k
0
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0
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721
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Comment: Comment: Too many significant genes when integrating gtex and tcga
3 months ago ATpoint ★ 4.4k
1
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0
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277
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Answer: Answer: DESeq2 - vst() - log2FC - no replicates
3 months ago ATpoint ★ 4.4k
0
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0
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508
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Answer: Answer: PCA (Principal Component Analysis) plots from ChIP-seq data
3 months ago ATpoint ★ 4.4k
0
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1
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797
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Comment: Comment: Create multiple DoparParams with different number of registered cores
3 months ago ATpoint ★ 4.4k
2
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6
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797
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Create multiple DoparParams with different number of registered cores
BiocParallel
updated 3 months ago by 67k • written 3 months ago by ★ 4.4k
0
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1
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797
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Comment: Comment: Create multiple DoparParams with different number of registered cores
3 months ago ATpoint ★ 4.4k
0
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1
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485
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Comment: Comment: Single Cell Experiment : Differential Expression "List of length 0" - Help!
3 months ago ATpoint ★ 4.4k
0
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1
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485
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Comment: Comment: Single Cell Experiment : Differential Expression "List of length 0" - Help!
3 months ago ATpoint ★ 4.4k
0
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0
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2.2k
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Comment: Comment: Multiple factor DSEq2 result generates weird volcano plot
3 months ago ATpoint ★ 4.4k
0
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0
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466
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Comment: Comment: When I tried to use the functions from the celldex package to fetch information,
3 months ago ATpoint ★ 4.4k
0
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0
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720
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Comment: Comment: Issues with installing Bioconductor packages (eg GEOquery)
3 months ago ATpoint ★ 4.4k
0
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1
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720
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Answer: Answer: Issues with installing Bioconductor packages (eg GEOquery)
3 months ago ATpoint ★ 4.4k
0
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0
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245
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Answer: Answer: How to access the Bioconductor in Windows
3 months ago ATpoint ★ 4.4k
0
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0
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414
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Comment: Comment: Ploting of normalized counts after batch removal
3 months ago ATpoint ★ 4.4k
1
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0
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397
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Answer: Answer: Deseq2
4 months ago ATpoint ★ 4.4k
0
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0
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1.3k
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Comment: Comment: Why is longestConsecutive() depreceated in version 2.72 (BioC version 3.19)?
4 months ago ATpoint ★ 4.4k
0
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1
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639
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Comment: Comment: Counter-directional LFC shrinkage
4 months ago ATpoint ★ 4.4k
0
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0
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850
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Comment: Comment: Volcano plot of scRNA-seq data not "centered"
4 months ago ATpoint ★ 4.4k
0
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1
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442
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Answer: Answer: Normalisation using clinical traits in RNA seq using DESeq2
4 months ago ATpoint ★ 4.4k
0
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1
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850
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Answer: Answer: Volcano plot of scRNA-seq data not "centered"
4 months ago ATpoint ★ 4.4k
0
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1
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1.0k
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Comment: Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai
4 months ago ATpoint ★ 4.4k
971 results • Page 1 of 20
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