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2.6k
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Answer:
A: DESeq2: Possible issue with colData and sorting
7.7 years ago
Steve Lianoglou
★ 13k
2
votes
1
reply
6.0k
views
Answer:
A: Voom: need at least two non-NA values to interpolate
7.7 years ago
Steve Lianoglou
★ 13k
4
votes
1
reply
3.0k
views
Answer:
C: DEseq2 with limited gene set
7.8 years ago
Steve Lianoglou
★ 13k
0
votes
1
reply
3.0k
views
Answer:
C: The recount package is not available for R version 3.3.1
7.8 years ago
Steve Lianoglou
★ 13k
0
votes
1
reply
1.8k
views
Answer:
A: DESeq2 for R 3.1.3 version
7.8 years ago
Steve Lianoglou
★ 13k
1
vote
1
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2.5k
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Answer:
A: How to carry out differential gene expression starting with a table of TMM norma
7.8 years ago
Steve Lianoglou
★ 13k
6
votes
1
reply
1.8k
views
Answer:
A: Filtering after a contrast
7.8 years ago
Steve Lianoglou
★ 13k
1
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0
replies
1.1k
views
Answer:
A: Appeal to DESeq2 authors: please keep results reproducible across version
7.8 years ago
Steve Lianoglou
★ 13k
0
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0
replies
1.3k
views
Answer:
A: Should edgeR-GLM on single cell RNA data be performed on the counts or normalize
7.8 years ago
Steve Lianoglou
★ 13k
0
votes
1
reply
1.6k
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Answer:
A: I get nothing in my up and down regulated genes
7.8 years ago
Steve Lianoglou
★ 13k
3
votes
1
reply
9.4k
views
Answer:
A: limma lmFit coefficients and p-values
7.8 years ago
Steve Lianoglou
★ 13k
0
votes
1
reply
2.3k
views
Answer:
A: Homo.sapiens select error
7.8 years ago
Steve Lianoglou
★ 13k
1
vote
1
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1.4k
views
Answer:
A: DESeq2: Do basemean values take into account interaction effects?
7.8 years ago
Steve Lianoglou
★ 13k
1
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0
replies
2.2k
views
Answer:
A: Why does the filtering of lowly expressed genes for analysis with edgeR must be
7.8 years ago
Steve Lianoglou
★ 13k
3
votes
1
reply
4.4k
views
Answer:
A: Filtering lowly expressed genes in voom-limma analysis
7.8 years ago
Steve Lianoglou
★ 13k
3
votes
2
replies
6.7k
views
Answer:
A: edgeR subsetting DGEList by column/sample
7.8 years ago
Steve Lianoglou
★ 13k
3
votes
1
reply
1.5k
views
Answer:
A: Counting ambiguously mapped reads per feature
7.8 years ago
Steve Lianoglou
★ 13k
0
votes
0
replies
2.4k
views
Answer:
A: Getting rawdata for TMM normalization
7.9 years ago
Steve Lianoglou
★ 13k
3
votes
2
replies
11k
views
Answer:
A: EdgeR glmLRT vs glmQLFTest
7.9 years ago
Steve Lianoglou
★ 13k
0
votes
1
reply
1.7k
views
Answer:
A: DESeq2 with paired data Heatmap
7.9 years ago
Steve Lianoglou
★ 13k
1
vote
0
replies
1.5k
views
Answer:
A: RNAseq outlier is a critical sample
8.0 years ago
Steve Lianoglou
★ 13k
0
votes
0
replies
977
views
Answer:
A: ExpressionSet: Internal Standard
8.0 years ago
Steve Lianoglou
★ 13k
0
votes
1
reply
1.6k
views
Answer:
A: Making package compatible with old version of R/Bioconductor
8.0 years ago
Steve Lianoglou
★ 13k
0
votes
0
replies
1.4k
views
Answer:
A: ROAST using curated gene sets
8.0 years ago
Steve Lianoglou
★ 13k
1
vote
1
reply
1.6k
views
Answer:
A: limma paired design with continous covariate
8.0 years ago
Steve Lianoglou
★ 13k
1
vote
1
reply
1.8k
views
Answer:
A: Gviz: How to plot UTRs with GRanges object?
8.0 years ago
Steve Lianoglou
★ 13k
2
votes
1
reply
3.4k
views
Answer:
A: Can't make working link in roxygen2
8.0 years ago
Steve Lianoglou
★ 13k
1
vote
0
replies
1.9k
views
Answer:
A: CellMix compare results to CellCODE
8.0 years ago
Steve Lianoglou
★ 13k
1
vote
1
reply
1.9k
views
Answer:
A: read counts of paired end reads for DESeq2 analysis
8.1 years ago
Steve Lianoglou
★ 13k
0
votes
1
reply
1.7k
views
Answer:
A: edgeR - inconsistent logFC sign
8.1 years ago
Steve Lianoglou
★ 13k
2
votes
1
reply
2.7k
views
Answer:
A: Modifying eset@assayData$exprs : Error : cannot change value of locked binding f
8.1 years ago
Steve Lianoglou
★ 13k
1
vote
0
replies
3.5k
views
Answer:
A: Kernel Ridge Regression in R for Drug-Target Interaction
8.1 years ago
Steve Lianoglou
★ 13k
2
votes
1
reply
3.2k
views
Answer:
A: Differing topTable() results with Limma with and without specifying coefficient
8.1 years ago
Steve Lianoglou
★ 13k
0
votes
1
reply
811
views
Answer:
A: queryLoc2refLoc not implemented?
8.1 years ago
Steve Lianoglou
★ 13k
1
vote
0
replies
1.5k
views
Answer:
A: CellCODE estimate cell proportions SPV analysis grouping comparisons faulty
8.1 years ago
Steve Lianoglou
★ 13k
0
votes
0
replies
1.1k
views
Answer:
A: Functions of DESeq2 package
8.1 years ago
Steve Lianoglou
★ 13k
2
votes
1
reply
1.2k
views
Answer:
A: limma making contrasts appropriately
8.1 years ago
Steve Lianoglou
★ 13k
3
votes
0
replies
1.6k
views
Answer:
A: limma experimental design
8.1 years ago
Steve Lianoglou
★ 13k
0
votes
0
replies
2.3k
views
Answer:
A: How to get list of genes that are DE from the goseq analysis results
8.1 years ago
Steve Lianoglou
★ 13k
1
vote
0
replies
1.7k
views
Answer:
A: A rational way for selecting the number of DEG with significant p-value for GSEA
8.2 years ago
Steve Lianoglou
★ 13k
0
votes
1
reply
3.0k
views
Answer:
A: Arguments for camera (gene set analysis)
8.2 years ago
Steve Lianoglou
★ 13k
0
votes
0
replies
23k
views
Answer:
A: Converting first column to rownames
8.2 years ago
Steve Lianoglou
★ 13k
1
vote
1
reply
2.1k
views
Answer:
A: unable to find Lumi package in R
8.2 years ago
Steve Lianoglou
★ 13k
1
vote
0
replies
2.3k
views
Answer:
A: RUVg or RUVs
8.3 years ago
Steve Lianoglou
★ 13k
1
vote
1
reply
5.6k
views
Answer:
A: Differences between edgeR's and limma+voom's implementation of camera/roast/rome
8.3 years ago
Steve Lianoglou
★ 13k
2
votes
1
reply
2.2k
views
Answer:
A: mean-variance corrected data from voom
8.3 years ago
Steve Lianoglou
★ 13k
0
votes
0
replies
3.1k
views
Answer:
A: DESeq2 filter out my expression gene
8.3 years ago
Steve Lianoglou
★ 13k
2
votes
0
replies
2.7k
views
Answer:
A: Rqc for RNA-Seq data
8.3 years ago
Steve Lianoglou
★ 13k
6
votes
1
reply
18k
views
Answer:
A: when to apply quantile normalization with voom in limma/voom framework with RNA-
8.3 years ago
Steve Lianoglou
★ 13k
0
votes
0
replies
2.5k
views
Answer:
A: cross platform normalization in R
8.3 years ago
Steve Lianoglou
★ 13k
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