Showing : differential expression analysis • reset
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EdgeR full model vs. reduced model - p-value for covariate
EdgeR differential expression analysis covariates
updated 22 months ago by 45k • written 22 months ago by ▴ 50
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2
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EdgeR blocking factor - missing paired sample
EdgeR edgeR RNA-seq differential expression analysis blocking factors
updated 23 months ago by 45k • written 23 months ago by ▴ 50
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1
reply
330
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Using DeSeq2 on microRNA data
deseq2 mirdeep2 microRNA differential expression analysis
updated 2.1 years ago by 37k • written 2.1 years ago by • 0
0
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1
reply
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differential expression analysis of rice
microarray differential expression analysis GPL2025 affymetrix
updated 3.2 years ago by ★ 27k • written 3.2 years ago by • 0
5
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Differential Expression Analysis between conditions of single cell RNA-Seq
deseq2 scRNA-Seq RNA-Seq differential expression analysis
updated 3.2 years ago by 37k • written 3.2 years ago by ▴ 50
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Differences in contrast results while using DESeq2 for one vs all rest combined conditions
deseq2 rna-seq differential expression analysis
3.3 years ago shreygandhi1990 ▴ 10
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Code to address batch effect in total number of reads/ sample for DEG using Ballgown
differential expression analysis ballgown r batch effects total number of reads
updated 3.6 years ago by 59k • written 3.6 years ago by • 0
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Comment: Can Differential Isoform expression analysis can be performed using DESeq2 packa by priyanka.m • 0
Hi Michael, I performed Differential isoform expression analysis using Swish and have got some isoforms. I had previously performed the g…
Comment: CPM after RUVseq by James W. MacDonald 59k
Also, you might be confused about something. CPM is counts/million counts, which *uses library size to scale normalize* and logCPM is just…
Comment: CPM after RUVseq by James W. MacDonald 59k
You shouldn't use CPM or logCPM for any of the steps! To use `RUVr` you need to fit a preliminary model using `edgeR`, which takes counts a…
Comment: CPM after RUVseq by Jess • 0
Thank you James! It hadn't occurred to me to input CPM rather than logCPM which is why my df$NormalizedCounts didn't exceed 17ish in valu…
Answer: RPX PXDataset error by Laurent Gatto 1.5k
- From the URL in the error, it looks like you have the latest (or a recent) `rpx` version. It is generally recommended to add the output o…
Votes
Answer: CPM after RUVseq
Comment: Merging two plated in R
Answer: Merging two plated in R
Answer: Merging two plated in R
A: Can we use glmQLFit instead of glmFit and then glmLRT in edgeR
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