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Comment: C: Fitting Gamma GLMs for examining differential expression
6.2 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.2k
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Comment: C: Unmix() function in DeSeq capabilities
6.2 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.9k
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Comment: C: How to handle multi-TSS genes in Repitools?
6.2 years ago Ryan C. Thompson ★ 7.9k
0
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0
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749
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Comment: C: Normalize for changes in one direction
6.2 years ago Ryan C. Thompson ★ 7.9k
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1
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2.5k
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Comment: C: Removing batch effects from microarray data based on only a subset of samples
6.3 years ago Ryan C. Thompson ★ 7.9k
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1
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2.5k
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Comment: C: Removing batch effects from microarray data based on only a subset of samples
6.3 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.8k
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Comment: C: Help running the nondetects::qpcrImpute on my data?
6.3 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.5k
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Comment: C: Normalized counts after fitting linear model with batch effects - edgeR
6.3 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.8k
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Comment: C: Help running the nondetects::qpcrImpute on my data?
6.3 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.8k
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Comment: C: Help running the nondetects::qpcrImpute on my data?
6.3 years ago Ryan C. Thompson ★ 7.9k
0
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1
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7.1k
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Comment: C: Correct sequence of functions for edgeR, edgeR robust and edgeR QL.
6.4 years ago Ryan C. Thompson ★ 7.9k
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0
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1.3k
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Comment: C: DESeq2 Different Results when using different foreach parallel backends
6.4 years ago Ryan C. Thompson ★ 7.9k
0
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0
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1.6k
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Comment: C: glmTreat Errors for multi coefficient and analysis of deviance situations.
6.5 years ago Ryan C. Thompson ★ 7.9k
0
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2
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1.6k
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Comment: C: glmTreat Errors for multi coefficient and analysis of deviance situations.
6.5 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.4k
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Comment: C: normalization of CHIP-seq samples (ChIP and INPUT)
6.5 years ago Ryan C. Thompson ★ 7.9k
1
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0
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1.7k
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Comment: C: Loads, really loads of DEGs after edgeR differential analysis
6.5 years ago Ryan C. Thompson ★ 7.9k
2
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1
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11k
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Comment: C: Effect of lfcThreshold on p-value in DESeq2
6.5 years ago Ryan C. Thompson ★ 7.9k
1
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0
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4.4k
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Comment: C: Camera and ROAST
6.5 years ago Ryan C. Thompson ★ 7.9k
1
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0
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4.4k
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Comment: C: Camera and ROAST
6.5 years ago Ryan C. Thompson ★ 7.9k
0
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0
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7.3k
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Comment: C: Choosing a threshold for minimum counts in RNAseq
6.5 years ago Ryan C. Thompson ★ 7.9k
2
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1
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1.7k
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Comment: C: Is there are better way to improve the design via blocking or contrasts while us
6.5 years ago Ryan C. Thompson ★ 7.9k
0
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1
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3.0k
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Comment: C: Comparing one condition to multiple others using DESeq2 contrasts
6.6 years ago Ryan C. Thompson ★ 7.9k
2
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1
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1.7k
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Comment: C: Is there are better way to improve the design via blocking or contrasts while us
6.6 years ago Ryan C. Thompson ★ 7.9k
0
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0
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1.1k
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Comment: C: Non-used samples changing number of significant genes in limma
6.6 years ago Ryan C. Thompson ★ 7.9k
0
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0
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1.6k
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Comment: C: Limma: how to account for twin data (both MZ and DZ twins)?
6.6 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.5k
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Comment: C: When doing differential gene analysis, why measuring genes based on exons? Can w
6.6 years ago Ryan C. Thompson ★ 7.9k
0
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1
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11k
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Comment: C: Why different filtering criteria using CPM to filter the RNA-seq count data in e
6.6 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.5k
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Comment: C: When doing differential gene analysis, why measuring genes based on exons? Can w
6.6 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.5k
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Comment: C: When doing differential gene analysis, why measuring genes based on exons? Can w
6.6 years ago Ryan C. Thompson ★ 7.9k
0
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0
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4.3k
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Comment: C: Why limma, edgeR, and DESeq did not implement fold change moderation first?
6.6 years ago Ryan C. Thompson ★ 7.9k
1
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0
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1.5k
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Comment: C: EdgeR: Replicate samples diverge in MDS plot
6.6 years ago Ryan C. Thompson ★ 7.9k
0
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0
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1.2k
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Comment: C: Can rtracklayer import tab-delimited BED files with unquoted spaces in fields?
6.7 years ago Ryan C. Thompson ★ 7.9k
0
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0
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8.7k
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Comment: C: removeBatchEffect options: design and covariates
updated 6.7 years ago by 50k • written 9.8 years ago by ★ 7.9k
0
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1
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8.7k
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Comment: C: removeBatchEffect options: design and covariates
updated 6.7 years ago by 50k • written 9.8 years ago by ★ 7.9k
0
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0
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8.7k
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Comment: C: removeBatchEffect options: design and covariates
updated 6.7 years ago by 50k • written 9.8 years ago by ★ 7.9k
1
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0
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2.3k
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Comment: C: Why Differential expression results differ with edgeR and limma ?
6.7 years ago Ryan C. Thompson ★ 7.9k
1
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1
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885
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Comment: C: LFDR PROPTRUENULL LIMMA
6.8 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.2k
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Comment: C: DESeq2: dealing with outliers
6.8 years ago Ryan C. Thompson ★ 7.9k
2
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0
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1.4k
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Comment: C: pvalue of deseq2
6.9 years ago Ryan C. Thompson ★ 7.9k
1
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0
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1.4k
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Comment: C: pvalue of deseq2
6.9 years ago Ryan C. Thompson ★ 7.9k
0
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1
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1.4k
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Comment: C: pvalue of deseq2
6.9 years ago Ryan C. Thompson ★ 7.9k
0
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0
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4.7k
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Comment: C: What is the proper way to modify mcols of a GRanges inside a GRangesList?
7.0 years ago Ryan C. Thompson ★ 7.9k
1
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1
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10k
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Comment: C: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
7.0 years ago Ryan C. Thompson ★ 7.9k
0
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0
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10k
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Comment: C: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
7.0 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
10k
views
Comment: C: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
7.0 years ago Ryan C. Thompson ★ 7.9k
0
votes
1
reply
10k
views
Comment: C: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
7.0 years ago Ryan C. Thompson ★ 7.9k
1
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1
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4.4k
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Comment: C: Alternative packages to limma for analysis of microarray datasets
7.0 years ago Ryan C. Thompson ★ 7.9k
2
votes
1
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10k
views
Comment: C: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
7.0 years ago Ryan C. Thompson ★ 7.9k
1
vote
1
reply
10k
views
Comment: C: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
7.0 years ago Ryan C. Thompson ★ 7.9k
0
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0
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2.5k
views
Comment: C: Force DESeq2 to use pseudocounts
7.1 years ago Ryan C. Thompson ★ 7.9k
435 results • Page 2 of 9
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