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Answer: Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
5 hours ago Michael Love 41k
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155
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Answer: Answer: Use of negative binomial model for exponential decay rate estimation using DESeq
1 day ago Michael Love 41k
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147
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Answer: Answer: DESeq2 - dispersion estimation when there is none
2 days ago Michael Love 41k
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87
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Answer: Answer: rlog transformation
6 days ago Michael Love 41k
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85
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Answer: Answer: ONT long-read RNA sequencing - data analysis options
6 days ago Michael Love 41k
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95
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Answer: Answer: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
6 days ago Michael Love 41k
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110
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Answer: Answer: covariate with negative and positive values
6 days ago Michael Love 41k
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217
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Answer: Answer: How to retrieve detailed regression results from deseq2
9 days ago Michael Love 41k
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229
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Answer: Answer: DEG with low counts
9 days ago Michael Love 41k
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192
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Answer: Answer: Interaction term vs grouping variable design considerations
15 days ago Michael Love 41k
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137
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Answer: Answer: IgG control in RIP-seq with Deseq2
15 days ago Michael Love 41k
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219
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Answer: Answer: Regressing out batch effects
15 days ago Michael Love 41k
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136
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Answer: Answer: DESeq2 , filter and theta arguments in resutlts()
22 days ago Michael Love 41k
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229
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Answer: Answer: Abnormal Low Dispersion Gene Population in DESeq2
23 days ago Michael Love 41k
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155
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Answer: Answer: Convert transcriptomic bam to genomic bam?
23 days ago Michael Love 41k
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142
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Answer: Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
27 days ago Michael Love 41k
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312
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Answer: Answer: Doing comparison of RNA-seq data using Deseq2
27 days ago Michael Love 41k
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324
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Answer: Answer: PCA of different bacterial species
28 days ago Michael Love 41k
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191
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Answer: Answer: Clarification on Library Size Normalization After Using tximport with countsFrom
29 days ago Michael Love 41k
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157
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Answer: Answer: collapseReplicates dimension error
4 weeks ago Michael Love 41k
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211
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Answer: Answer: DESeq2 "Contrast" option
4 weeks ago Michael Love 41k
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210
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Answer: Answer: Filtering and Reference Level for DESeq2
5 weeks ago Michael Love 41k
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283
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Answer: Answer: DESeq2 - Plot Nr. Genes vs Variance explained in PCA
5 weeks ago Michael Love 41k
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243
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Answer: Answer: Help with Complex DESeq2 Design
5 weeks ago Michael Love 41k
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163
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Answer: Answer: Need help with creating and plotting temporal clustering analysis of DEGs
5 weeks ago Michael Love 41k
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132
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Answer: Answer: Help with DESeqDataSetFromHTSeqCount
5 weeks ago Michael Love 41k
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164
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Answer: Answer: lfcShrink error: the line search routine failed
5 weeks ago Michael Love 41k
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254
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Answer: Answer: RNAseq analysis
5 weeks ago Michael Love 41k
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206
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Answer: Answer: With DESeq2 "Not full rank" Error with design
5 weeks ago Michael Love 41k
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301
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Answer: Answer: Missing Band on Volcano Plot from DESeq2
5 weeks ago Michael Love 41k
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405
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Answer: Answer: DESeq2: subtract effect of an isotope control before comparing to a baseline sam
5 weeks ago Michael Love 41k
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406
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Answer: Answer: DESeq2 filtering vs edgeR filtering
6 weeks ago Michael Love 41k
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358
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Answer: Answer: Cross-species analysis - how to compute the mid parent value?
6 weeks ago Michael Love 41k
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320
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Answer: Answer: DESeq2: Comparing A Knockout to a Strain
6 weeks ago Michael Love 41k
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255
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Answer: Answer: DEseq2 dispersion plot
7 weeks ago Michael Love 41k
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307
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Answer: Answer: Dispersion estimation step is very slow with latest DESeq2 and glmGamPoi
7 weeks ago Michael Love 41k
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177
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Answer: Answer: few significant genes from DESeq2 analysis
8 weeks ago Michael Love 41k
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2
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373
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Answer: Answer: DEseq2 coefficient
8 weeks ago Michael Love 41k
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1
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600
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Answer: Answer: DESEQ Inquiry
8 weeks ago Michael Love 41k
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0
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243
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Answer: Answer: Limma Question
8 weeks ago Michael Love 41k
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1
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297
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Answer: Answer: evaluate the variable importance on genes
8 weeks ago Michael Love 41k
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331
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Answer: Answer: library sizes differ extremely after dds
8 weeks ago Michael Love 41k
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658
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Answer: Answer: Unexpected behavior of lfcShrink() function in DESeq2 analysis
8 weeks ago Michael Love 41k
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341
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Answer: Answer: vst transformation and zero counts
9 weeks ago Michael Love 41k
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1.0k
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Answer: Answer: 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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308
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Answer: Answer: utf-8 codec can't decode byte 0xd5
9 weeks ago Michael Love 41k
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1
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375
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Answer: Answer: DESeq2: Adjust for treatment effect patient vs control
9 weeks ago Michael Love 41k
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359
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Answer: Answer: Pseudobulk-DESeq2 analyze multiple cell types at once?
9 weeks ago Michael Love 41k
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385
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Answer: Answer: DESeq filtering specific to contrasts
9 weeks ago Michael Love 41k
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1
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425
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Answer: Answer: help checking the design matrix and contrast in DESeq2 "not full rank" scenario
9 weeks ago Michael Love 41k
3,646 results • Page 1 of 73
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