Bioconductor DEGS

Showing : DEGS • reset

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624

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DESeq2 Complicated.contrast DEGs

updated 19 months ago by Michael Love 41k • written 20 months ago by Mike • -60

-6

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836

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complicated.contrast edgeR DEGs

20 months ago Mike • -60

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903

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edgeR DEGs

updated 2.1 years ago by Gordon Smyth 50k • written 2.1 years ago by RR • 0

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777

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edgeR DEGs DESEQ2 RNASeqData

2.2 years ago Raito92 ▴ 60

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957

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RNAseq edgeR DEGs

updated 2.2 years ago by Gordon Smyth 50k • written 2.7 years ago by Ming ▴ 380

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2.4k

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DESeq2 DEGs

2.8 years ago • updated 2.7 years ago Ming ▴ 380

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4.9k

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RNASeq EnhancedVolcano DEGs

updated 2.9 years ago by Kevin Blighe ★ 3.9k • written 2.9 years ago by robledoj13 • 0

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21k

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deseq2 rna-seq DEGs cooks cutoff

updated 2.3 years ago by rickap • 0 • written 5.3 years ago by aishu.jp ▴ 30

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980

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DESeq2 Nullcook'svalues 2x3 DEGs

3.1 years ago andreia ▴ 10

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1.3k

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heatmaps DEGs PCA

updated 3.2 years ago by Kevin Blighe ★ 3.9k • written 3.2 years ago by MOHAMMAD • 0

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1.0k

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DEGs DESeq2

3.3 years ago 2021yearsold • 0

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831

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mircomb mrna mirna degs interaction

3.8 years ago andreia ▴ 10

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787

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deseq2 mircomb degs dems

updated 3.8 years ago by Michael Love 41k • written 3.8 years ago by andreia ▴ 10

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882

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clusterProfiler Bioconductor R DEGs

3.9 years ago tpm • 0

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2.3k

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edger DEGs normalization

updated 4.3 years ago by Gordon Smyth 50k • written 4.3 years ago by anikng ▴ 10

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987

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edger DEGs

4.3 years ago anikng ▴ 10

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985

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deseq2 rrpp DEGs RNAseq

updated 4.4 years ago by Michael Love 41k • written 4.4 years ago by gmchaput • 0

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4.1k

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heatmap DEGs RNAseq DESeq2

updated 4.8 years ago by mikhael.manurung ▴ 270 • written 4.8 years ago by danikadigiacomo • 0

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1.1k

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edger degs paired design

updated 5.8 years ago by Gordon Smyth 50k • written 5.8 years ago by takumima ▴ 10

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2.1k

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limma heatmap DEGs

updated 6.3 years ago by Gordon Smyth 50k • written 6.3 years ago by lawarde.ankita1 ▴ 30

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1.1k

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edgeR DEGS common disperion

updated 6.7 years ago by Aaron Lun ★ 28k • written 6.7 years ago by baus87 • 0

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2.7k

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limma microarray DEGs p values lfc

6.9 years ago rkp • 0

22 results • Page 1 of 1

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Comment: log2FoldChange value is way too different when compared with counts(dds) by Michael Love 41k

But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…

Comment: log2FoldChange value is way too different when compared with counts(dds) by HAK • 0

Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…

Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by ATpoint ★ 4.1k

Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…

Comment: Store output of matchPWM() by James W. MacDonald 65k

Here's a self contained reproducible example, using part of the example in `?matchPWM` ``` > library(Biostrings) > data(HNF4alpha) > libr…

Comment: DEseq2 coefficient by JKim • 0

Hi Dr. Love, I'm sorry to ask another question to my old post. If the design isn't balanced, the interpretation of coefficients will be…

Votes

SPIA plotP giving error

Answer: Fold change calculation in Diffbind vs. DESEQ2?

C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB

C: Extremely big genes in annotation TxDb packages

Make custom Txdb class objects from Txdb

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