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Answer: Answer: How to use DESeq results with LRT vs. with Wald's test
6 months ago Michael Love 42k
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349
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Answer: Answer: DEseq2 : Complex design with a mixture of male and female mice
6 months ago Michael Love 42k
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423
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Answer: Answer: Help Subsetting DDS for plotPCA for contrast groups
6 months ago Michael Love 42k
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502
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Answer: Answer: Deseq2 - Pairwise results from 6 conditions - error non-conformable arguments
6 months ago Michael Love 42k
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385
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Answer: Answer: DESeq2 and determining effects of treatment on a priori/candidate genes from a b
6 months ago Michael Love 42k
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446
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Answer: Answer: DESeq2: Comparison of single clinical sample to 4 normals using tumour cohort t
6 months ago Michael Love 42k
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674
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Answer: Answer: Can DESeq2 be used to compare groups of genes?
6 months ago Michael Love 42k
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535
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Answer: Answer: DESeq2 for microbiome data: raw counts or percentages?
6 months ago Michael Love 42k
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659
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Answer: Answer: tximeta errors: couldn't find matching transcriptome, returning non-ranged Summa
6 months ago Michael Love 42k
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402
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Answer: Answer: Swimming downstream: transcript fold changes
6 months ago Michael Love 42k
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745
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Answer: Answer: DESeq2 unable to handle large count values
6 months ago Michael Love 42k
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464
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Answer: Answer: DESeq2 model for two genome system
6 months ago Michael Love 42k
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396
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Answer: Answer: DESeq2: different results with and without releveling when providing contrast
6 months ago Michael Love 42k
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403
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Answer: Answer: Controling for Covariates With a Continuous Predictor Variable
6 months ago Michael Love 42k
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478
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Answer: Answer: Is my data too noisy for DESeq? Should I model noise as unwanted variation?
6 months ago Michael Love 42k
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850
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Answer: Answer: Quickly calculating adjusted Fold Change with DESeq2
6 months ago Michael Love 42k
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724
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Answer: Answer: Unable to replicate figures of CBCS data after nSolver and RUVSeq normalization
6 months ago Michael Love 42k
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666
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Answer: Answer: Will DESeq2 be appropriate tool for analysis?
7 months ago Michael Love 42k
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621
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Answer: Answer: DESeq2 Error in Results Contrast and ResultsNames
7 months ago Michael Love 42k
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1.1k
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Answer: Answer: DESeq2 gene length normalisation
7 months ago Michael Love 42k
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772
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Answer: Answer: DeSeq2 normalization 16S
7 months ago Michael Love 42k
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740
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Answer: Answer: DESeq2 : standardising variation between treatments
7 months ago Michael Love 42k
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438
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Answer: Answer: Issues with ddseq2 for treatment response factoring in different KO clones
7 months ago Michael Love 42k
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2.0k
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Answer: Answer: tximport error: vroom
7 months ago Michael Love 42k
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676
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Answer: Answer: Mixed up sample info with plotPCA
7 months ago Michael Love 42k
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745
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Answer: Answer: Deseq2 calculated log2foldchange not consistent with RPM in IP-small RNA-seq
8 months ago Michael Love 42k
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456
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Answer: Answer: Remove duplicates of colData in TreeSummarizedExperiment
8 months ago Michael Love 42k
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474
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Answer: Answer: how to adjust other conditions when calling DEGs by DESeq2
8 months ago Michael Love 42k
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902
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Answer: Answer: Permutation test in DESeq2?
8 months ago Michael Love 42k
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469
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Answer: Answer: Setting up a multi-factor experiement
8 months ago Michael Love 42k
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558
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Answer: Answer: DESeq design and contrast with multiple factors
8 months ago Michael Love 42k
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521
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Answer: Answer: Dramatically different DESeq2 results in Mac and Linux computers
8 months ago Michael Love 42k
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946
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Answer: Answer: Handle zero effective gene length when tximport RSEM results
9 months ago Michael Love 42k
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1.5k
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Answer: Answer: Does countsFromAbundance="lengthScaledTPM" produce un-normalized counts?
9 months ago Michael Love 42k
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851
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Answer: Answer: Import Salmon data with tximport and pool technical replicates
9 months ago Michael Love 42k
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876
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Answer: Answer: DESeq2: How to estimate effects of one factor controlling for other factors?
9 months ago Michael Love 42k
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902
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Answer: Answer: Error: insufficient numeric precision during Log fold change shrinkage with apeg
9 months ago • updated 8 months ago Michael Love 42k
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498
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Answer: Answer: Comparing the effect of single drug and two-drug combination with control in RNA
9 months ago Michael Love 42k
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721
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Answer: Answer: DESeq2 batch design
9 months ago Michael Love 42k
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529
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Answer: Answer: DESeq2 interaction design
9 months ago Michael Love 42k
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588
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Answer: Answer: DESeq2 "Not full rank" and "Less than full rank" Errors with design ~ time + in
9 months ago Michael Love 42k
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669
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Answer: Answer: DESeq2 & RUVseq model matrix is less than full rank
9 months ago Michael Love 42k
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1.4k
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Answer: Answer: RNA seq differential expression analysis for large sample size
10 months ago Michael Love 42k
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365
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Answer: Answer: Using DEseq2 for two conditions with different dispersions
10 months ago Michael Love 42k
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549
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Answer: Answer: I changed the reference in DGE contrasts by DESeq2, but the results changed just
10 months ago Michael Love 42k
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751
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Answer: Answer: Deseq2 Results are different using batch design
10 months ago Michael Love 42k
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315
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Answer: Answer: Tximport - Is transcript level expression sum equal to summarisetogene() results
10 months ago Michael Love 42k
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685
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Answer: Answer: lfc direction of effect flipped for ashr, apeGLM, but accurate to biological dat
10 months ago Michael Love 42k
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867
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Answer: Answer: R could not could not find function "makeTxDbFromGFF" after loading (GenomicFeat
10 months ago Michael Love 42k
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917
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Answer: Answer: DESeq2 not replicable results
10 months ago Michael Love 42k
3,664 results • Page 3 of 74
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