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Answer: Answer: Unexpected behavior of lfcShrink() function in DESeq2 analysis
10 weeks ago Michael Love 41k
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369
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Answer: Answer: vst transformation and zero counts
10 weeks ago Michael Love 41k
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Answer: Answer: How to calculate p value when comparing two sets of DEGs and not applying intera
10 weeks ago Michael Love 41k
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338
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Answer: Answer: utf-8 codec can't decode byte 0xd5
10 weeks ago Michael Love 41k
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402
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Answer: Answer: DESeq2: Adjust for treatment effect patient vs control
11 weeks ago Michael Love 41k
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391
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Answer: Answer: Pseudobulk-DESeq2 analyze multiple cell types at once?
11 weeks ago Michael Love 41k
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422
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Answer: Answer: DESeq filtering specific to contrasts
11 weeks ago Michael Love 41k
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435
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Answer: Answer: help checking the design matrix and contrast in DESeq2 "not full rank" scenario
11 weeks ago Michael Love 41k
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250
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Answer: Answer: Double batch effect (Individuals nested within blocks in DESeq2)
11 weeks ago Michael Love 41k
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222
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Answer: Answer: DESeq2 issue: can't create DESeq2 object
11 weeks ago Michael Love 41k
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427
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Answer: Answer: DESEQ2 Repeated Measures-like design error help
12 weeks ago Michael Love 41k
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256
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Answer: Answer: DESeq2 interaction terms RIPseq analysis
12 weeks ago Michael Love 41k
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215
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Answer: Answer: Continuous variable to identify responder genes using DESeq2
3 months ago Michael Love 41k
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188
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Answer: Answer: unequal number of treatmets to control
3 months ago Michael Love 41k
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268
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Answer: Answer: Batch effects removal across mRNA seq studies addressing different biological qu
3 months ago Michael Love 41k
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295
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Answer: Answer: PCA after DESeq2
3 months ago Michael Love 41k
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241
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Answer: Answer: DESeq2 lfcShrink drastic shrinkage
3 months ago Michael Love 41k
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337
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Answer: Answer: DESeq2 analysis on time-series RNA experiment
3 months ago Michael Love 41k
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456
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Answer: Answer: DESeq2 aborting after upgrade
3 months ago Michael Love 41k
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397
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Answer: Answer: Big differences between biological replicates makes DESeq2 result 0
3 months ago Michael Love 41k
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478
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Answer: Answer: Regressing out covariates from expression matrix for PCA visualization - can I u
3 months ago Michael Love 41k
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306
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Answer: Answer: Interaction tests and paired interaction tests in swish
3 months ago Michael Love 41k
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274
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Answer: Answer: Which fasta files to use for tximeta makeLinkTxome
3 months ago Michael Love 41k
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240
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Answer: Answer: DESEQ2 reduced model input into Pathfindr
3 months ago Michael Love 41k
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242
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Answer: Answer: Behavior of most genes in Ribosome-footprints dataset deviates from expected
3 months ago Michael Love 41k
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336
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Answer: Answer: Deleting a column from data frame and then running DESeq2
3 months ago Michael Love 41k
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417
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Answer: Answer: Plotting mean TPM of an expressed gene
3 months ago Michael Love 41k
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285
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Answer: Answer: Running Deseq2 with all samples vs samples for each comparison separately
3 months ago Michael Love 41k
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586
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Answer: Answer: DESeq2 design with multiple factors
3 months ago Michael Love 41k
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417
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Answer: Answer: DESeq2 Normalization for QC Samples
3 months ago Michael Love 41k
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390
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Answer: Answer: DESeq2 interaction term + sva
4 months ago Michael Love 41k
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470
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Answer: Answer: DESeq2: Difference in DEG numbers when switching reference condition (numerator,
4 months ago Michael Love 41k
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584
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Answer: Answer: DESeq2 collinearity, adjusting for covariates, and the ground truth
4 months ago Michael Love 41k
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918
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Answer: Answer: Small RNA-seq Analysis DESEQ2 : Unexpected Significance
4 months ago Michael Love 41k
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531
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Answer: Answer: DESeq2 : stat or lfcshrink for GSEA analysis
5 months ago Michael Love 41k
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561
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Answer: Answer: tximport: Error in is(txi, "list") : argument "txi" is missing, with no default
5 months ago Michael Love 41k
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286
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Answer: Answer: Lower FDR cutoff gives more gene counts
5 months ago Michael Love 41k
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376
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Answer: Answer: Using DESeq2 statistical framework with to identify differentially expressed loc
5 months ago Michael Love 41k
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458
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Answer: Answer: 'Subtracting' counts on basis of Negative control media and water samples
5 months ago Michael Love 41k
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367
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Answer: Answer: Limma/DESeq2 for unbalanced nested design (paired samples)
5 months ago Michael Love 41k
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278
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Answer: Answer: How to use DESeq results with LRT vs. with Wald's test
5 months ago Michael Love 41k
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327
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Answer: Answer: DEseq2 : Complex design with a mixture of male and female mice
5 months ago Michael Love 41k
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369
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Answer: Answer: Help Subsetting DDS for plotPCA for contrast groups
5 months ago Michael Love 41k
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459
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Answer: Answer: Deseq2 - Pairwise results from 6 conditions - error non-conformable arguments
5 months ago Michael Love 41k
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345
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Answer: Answer: DESeq2 and determining effects of treatment on a priori/candidate genes from a b
5 months ago Michael Love 41k
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408
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Answer: Answer: DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort t
5 months ago Michael Love 41k
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587
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Answer: Answer: Can DESeq2 be used to compare groups of genes?
5 months ago Michael Love 41k
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496
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Answer: Answer: DESeq2 for microbiome data: raw counts or percentages?
5 months ago Michael Love 41k
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621
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Answer: Answer: tximeta errors: couldn't find matching transcriptome, returning non-ranged Summa
5 months ago Michael Love 41k
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371
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Answer: Answer: Swimming downstream: transcript fold changes
5 months ago Michael Love 41k
3,654 results • Page 2 of 74
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