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Answer: Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
5 weeks ago Michael Love 41k
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356
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Answer: Answer: Doing comparison of RNA-seq data using Deseq2
5 weeks ago Michael Love 41k
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351
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Answer: Answer: PCA of different bacterial species
5 weeks ago Michael Love 41k
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208
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Comment: Comment: Clarification on Library Size Normalization After Using tximport with countsFrom
5 weeks ago Michael Love 41k
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208
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Answer: Answer: Clarification on Library Size Normalization After Using tximport with countsFrom
5 weeks ago Michael Love 41k
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170
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Answer: Answer: collapseReplicates dimension error
5 weeks ago Michael Love 41k
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234
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Answer: Answer: DESeq2 "Contrast" option
6 weeks ago Michael Love 41k
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304
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Comment: Comment: DESeq2 - Plot Nr. Genes vs Variance explained in PCA
6 weeks ago Michael Love 41k
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229
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Answer: Answer: Filtering and Reference Level for DESeq2
6 weeks ago Michael Love 41k
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304
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Answer: Answer: DESeq2 - Plot Nr. Genes vs Variance explained in PCA
6 weeks ago Michael Love 41k
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265
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Answer: Answer: Help with Complex DESeq2 Design
6 weeks ago Michael Love 41k
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700
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Comment: Comment: DESeq2 unable to handle large count values
6 weeks ago Michael Love 41k
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180
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Answer: Answer: Need help with creating and plotting temporal clustering analysis of DEGs
6 weeks ago Michael Love 41k
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147
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Answer: Answer: Help with DESeqDataSetFromHTSeqCount
6 weeks ago Michael Love 41k
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190
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Answer: Answer: lfcShrink error: the line search routine failed
7 weeks ago Michael Love 41k
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282
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Answer: Answer: RNAseq analysis
7 weeks ago Michael Love 41k
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227
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Answer: Answer: With DESeq2 "Not full rank" Error with design
7 weeks ago Michael Love 41k
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416
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Comment: Comment: DESeq2: subtract effect of an isotope control before comparing to a baseline sam
7 weeks ago Michael Love 41k
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323
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Answer: Answer: Missing Band on Volcano Plot from DESeq2
7 weeks ago Michael Love 41k
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416
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Answer: Answer: DESeq2: subtract effect of an isotope control before comparing to a baseline sam
7 weeks ago Michael Love 41k
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434
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Comment: Comment: DESeq2 filtering vs edgeR filtering
7 weeks ago Michael Love 41k
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434
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Answer: Answer: DESeq2 filtering vs edgeR filtering
7 weeks ago Michael Love 41k
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1.1k
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Comment: Comment: Adding cell population estimates as a covariate in DESeq2 differential gene expr
7 weeks ago Michael Love 41k
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407
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Answer: Answer: Cross-species analysis - how to compute the mid parent value?
8 weeks ago Michael Love 41k
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331
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Answer: Answer: DESeq2: Comparing A Knockout to a Strain
8 weeks ago Michael Love 41k
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403
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Comment: Comment: DESeq and SVA for batch effect
8 weeks ago Michael Love 41k
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272
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Answer: Answer: DEseq2 dispersion plot
8 weeks ago Michael Love 41k
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327
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Answer: Answer: Dispersion estimation step is very slow with latest DESeq2 and glmGamPoi
8 weeks ago Michael Love 41k
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629
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Comment: Comment: DESEQ Inquiry
8 weeks ago Michael Love 41k
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687
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Comment: Comment: Unexpected behavior of lfcShrink() function in DESeq2 analysis
9 weeks ago Michael Love 41k
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186
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Answer: Answer: few significant genes from DESeq2 analysis
9 weeks ago Michael Love 41k
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687
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Comment: Comment: Unexpected behavior of lfcShrink() function in DESeq2 analysis
9 weeks ago Michael Love 41k
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1
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1.1k
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Comment: Comment: How to calculate p value when comparing two sets of DEGs and not applying intera
9 weeks ago Michael Love 41k
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1
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687
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Comment: Comment: Unexpected behavior of lfcShrink() function in DESeq2 analysis
9 weeks ago Michael Love 41k
1
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1
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629
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Comment: Comment: DESEQ Inquiry
9 weeks ago Michael Love 41k
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1
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687
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Comment: Comment: Unexpected behavior of lfcShrink() function in DESeq2 analysis
9 weeks ago Michael Love 41k
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1
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1.1k
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Comment: Comment: How to calculate p value when comparing two sets of DEGs and not applying intera
9 weeks ago Michael Love 41k
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1
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1.1k
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Comment: Comment: How to calculate p value when comparing two sets of DEGs and not applying intera
9 weeks ago Michael Love 41k
1
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2
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478
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Answer: Answer: DEseq2 coefficient
9 weeks ago Michael Love 41k
1
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1
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629
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Answer: Answer: DESEQ Inquiry
9 weeks ago Michael Love 41k
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0
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264
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Answer: Answer: Limma Question
9 weeks ago Michael Love 41k
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687
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Comment: Comment: Unexpected behavior of lfcShrink() function in DESeq2 analysis
10 weeks ago Michael Love 41k
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343
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Comment: Comment: library sizes differ extremely after dds
10 weeks ago Michael Love 41k
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1
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319
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Answer: Answer: evaluate the variable importance on genes
10 weeks ago Michael Love 41k
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343
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Answer: Answer: library sizes differ extremely after dds
10 weeks ago Michael Love 41k
1
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1
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1.1k
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Comment: Comment: How to calculate p value when comparing two sets of DEGs and not applying intera
10 weeks ago Michael Love 41k
0
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1
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687
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Comment: Comment: Unexpected behavior of lfcShrink() function in DESeq2 analysis
10 weeks ago Michael Love 41k
0
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1
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687
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Answer: Answer: Unexpected behavior of lfcShrink() function in DESeq2 analysis
10 weeks ago Michael Love 41k
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27k
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Comment: Comment: DESEq2 Paired samples Before and after treatment
10 weeks ago Michael Love 41k
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0
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1.4k
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Comment: Comment: Normalizing Salmon output count data matrix using DESeq2
10 weeks ago Michael Love 41k
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