Bioconductor DEGS

Showing : DEGS • reset

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2.7k

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limma microarray DEGs p values lfc

6.9 years ago • updated 6.8 years ago rkp • 0

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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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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 paired design

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

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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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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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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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987

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edger DEGs

4.3 years ago anikng ▴ 10

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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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830

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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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1.0k

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DEGs DESeq2

3.3 years ago 2021yearsold • 0

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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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979

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DESeq2 Nullcook'svalues 2x3 DEGs

3.1 years ago andreia ▴ 10

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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

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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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776

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edgeR DEGs DESEQ2 RNASeqData

2.2 years ago Raito92 ▴ 60

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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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903

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edgeR DEGs

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

-6

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836

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complicated.contrast edgeR DEGs

20 months ago Mike • -60

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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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882

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clusterProfiler Bioconductor R DEGs

3.9 years ago tpm • 0

22 results • Page 1 of 1

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

This has been asked before, but with a multi factor design, the LFC for coefficient X adjust for the others, in a way that is often hard to…

Answer: Get genomic coordinates of CpGs sites (chromosomes, genomic position) by James W. MacDonald 65k

You don't say what array that is, so I will guess. ``` > library(IlluminaHumanMethylationEPICanno.ilm10b4.hg19) > Locations DataFrame…

Answer: SGSeq: moving toward diffex from SGSeq analysis by Leonard Goldstein ▴ 200

`vid` and `eid` are unique identifiers for splice variants and splicing events respectively. They are analogous to exon bin and gene identi…

Comment: Help with error using camera() in limma by Chris • 0

Thanks James! I fixed the error. I try gene symbol instead of entrez and it worked.

Comment: limma for gene expression analysis with big and unbalanced sample size by XW • 0

Could you explain more about the comment "there are no problems with using limma for unbalanced data sets" ? thanks.

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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