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2
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Answer: Answer: Deseq2 DE analysis of host-pathogen samples (model separately or jointly?)
9 months ago Michael Love 43k
0
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1
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1.7k
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Answer: Answer: ERCC Spike-In controls being discarded during Tximeta process:
9 months ago Michael Love 43k
1
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0
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3.4k
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Answer: Answer: DESeq2 class error: superclass "ExpData" not defined in the environment of the o
9 months ago • updated 8 months ago Michael Love 43k
0
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0
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1.3k
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Answer: Answer: How do I set up my DESeq analysis when I know a few vehicle control samples prov
10 months ago Michael Love 43k
0
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0
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795
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Answer: Answer: Differing results with DESeq2
10 months ago Michael Love 43k
0
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1
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2.6k
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Comment: Comment: DeSeq Strategies for run to run Replication
10 months ago Michael Love 43k
0
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0
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2.1k
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Comment: Comment: compute_fasta_digest does not match Salmon index hash
10 months ago Michael Love 43k
0
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1
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2.1k
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Answer: Answer: compute_fasta_digest does not match Salmon index hash
10 months ago Michael Love 43k
1
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1
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1.9k
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Comment: Comment: Using TPM from tximport of Salmon output for singscore
11 months ago Michael Love 43k
0
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1
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6.9k
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Comment: Comment: DESeq2 model - How to test case/control time course model when taking account wi
11 months ago Michael Love 43k
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0
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2.6k
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Comment: Comment: deseq2 lfc shrinkage with few DEGs
11 months ago Michael Love 43k
0
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0
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19k
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Comment: Comment: DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)
11 months ago Michael Love 43k
0
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0
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1.6k
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Comment: Comment: Guidance Needed: Best Practices for Handling Technical Replicates in RNA-seq Ana
11 months ago Michael Love 43k
2
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1
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1.9k
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Answer: Answer: Using TPM from tximport of Salmon output for singscore
11 months ago Michael Love 43k
0
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0
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871
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Comment: Comment: Removing UTR from GTF for gene quantification
11 months ago Michael Love 43k
3
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1
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1.7k
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Answer: Answer: Surprising behavior for DEXseq dispersion estimate plot?
11 months ago Michael Love 43k
0
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0
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514
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Answer: Answer: DESeq use in lipidomic analysis
11 months ago Michael Love 43k
0
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0
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1.2k
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Comment: Comment: Differential variance analysis - can i use deseq2
12 months ago Michael Love 43k
0
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1
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1.2k
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Answer: Answer: Differential variance analysis - can i use deseq2
12 months ago Michael Love 43k
0
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1
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779
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Comment: Comment: Web accessibility of Bioconductor.org
12 months ago Michael Love 43k
2
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0
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690
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Comment: Comment: plyranges: find exact GRanges match keeping metadata columns
12 months ago Michael Love 43k
0
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0
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513
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Answer: Answer: Comparing Mock vs Infected in WT and Knockout Cells
12 months ago Michael Love 43k
0
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0
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1.4k
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Answer: Answer: Using genomicRanges / plyranges to calculate score of peaks within intervals
12 months ago Michael Love 43k
1
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0
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2.1k
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Answer: Answer: Reducing and aggregating GRanges with gaps using plyranges
12 months ago Michael Love 43k
2
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1
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690
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Answer: Answer: Find exact GRanges match keeping metadata columns
12 months ago Michael Love 43k
0
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0
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785
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Answer: Answer: DEG analysis across multiple timepoints, treatments and tissues
13 months ago Michael Love 43k
0
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0
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837
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Comment: Comment: Is there a way to do DEG analysis across two batches sharing one sample only?
13 months ago Michael Love 43k
0
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2
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837
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Answer: Answer: Is there a way to do DEG analysis across two batches sharing one sample only?
13 months ago Michael Love 43k
0
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0
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594
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Answer: Answer: Curiously shaped volcano plot with using oarfish + swish to do differential gene
13 months ago Michael Love 43k
0
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0
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1.6k
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Comment: Comment: Problems with oarfish + tximport + swish
13 months ago Michael Love 43k
0
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1
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1.6k
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Comment: Comment: Problems with oarfish + tximport + swish
13 months ago Michael Love 43k
0
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0
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1.6k
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Comment: Comment: Problems with oarfish + tximport + swish
13 months ago Michael Love 43k
0
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0
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1.6k
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Comment: Comment: Problems with oarfish + tximport + swish
13 months ago Michael Love 43k
0
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0
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2.1k
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Comment: Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D
13 months ago Michael Love 43k
0
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1
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1.6k
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Comment: Comment: Problems with oarfish + tximport + swish
13 months ago Michael Love 43k
0
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1
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1.6k
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Answer: Answer: Problems with oarfish + tximport + swish
13 months ago Michael Love 43k
0
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0
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1.0k
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Comment: Comment: Differential variability modelling with vst() expression
13 months ago Michael Love 43k
1
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1
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1.0k
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Answer: Answer: Differential variability modelling with vst() expression
13 months ago Michael Love 43k
1
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2
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2.1k
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Comment: Comment: Why did PCA plots look exactly the same after adjusting for batch covariate in D
13 months ago Michael Love 43k
0
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0
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2.0k
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Comment: Comment: DESEQ2 Default Value for Cooks Distance cutoff
13 months ago Michael Love 43k
1
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0
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1.6k
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Answer: Answer: Considerations behind the choice of RNAseq Differential Expression Analysis Tool
13 months ago Michael Love 43k
0
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0
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702
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Answer: Answer: Please, I desperately need help with DESeq2. Three groups of repeated measures w
13 months ago Michael Love 43k
2
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0
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805
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Answer: Answer: Is it possible to work with DESeq2 where data is not properly matched for sex a
13 months ago Michael Love 43k
1
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0
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621
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Answer: Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
14 months ago Michael Love 43k
2
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0
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1.4k
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Answer: Answer: Standardization of rlog transformed counts before PCA
14 months ago Michael Love 43k
0
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0
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1.4k
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Comment: Comment: p value is 0, padj is 0
14 months ago Michael Love 43k
1
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1
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1.4k
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Answer: Answer: Pre-filtering TPM kallisto for ssGSEA / DESeq2
14 months ago Michael Love 43k
0
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0
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617
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Answer: Answer: Deseq2 Error in solve.default(qr.R(qrx)) : 'a' (1 x 0) must be square
14 months ago Michael Love 43k
0
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1
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1.1k
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Answer: Answer: lfcShrink and alpha value
14 months ago Michael Love 43k
2
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0
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972
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Answer: Answer: DESeq2- merging technical vs biological replicates
14 months ago Michael Love 43k
8,173 results • Page 2 of 164
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