Bioconductor Rna seq

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2.6k

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deseq2 mahattan plot RNA Seq

updated 3.5 years ago by bernatgel ▴ 150 • written 4.5 years ago by adeler001 • 0

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3.2k

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batch effect limma rna seq DE

updated 4.0 years ago by Steve Lianoglou ★ 13k • written 4.0 years ago by svlachavas ▴ 830

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648

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RNA seq cpm

updated 4.1 years ago by Kevin Blighe ★ 3.9k • written 4.1 years ago by isabel.pieterse • 0

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879

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sgseq alternative splicing rna seq

updated 4.4 years ago by Leonard Goldstein ▴ 200 • written 4.4 years ago by 116100016 • 0

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891

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edger RNA Seq

updated 4.4 years ago by James W. MacDonald 65k • written 4.4 years ago by abf ▴ 30

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494

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rna seq

4.4 years ago adeler001 • 0

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776

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rna seq SGSeq Alternative splicing

updated 4.5 years ago by Leonard Goldstein ▴ 200 • written 4.5 years ago by 116100016 • 0

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549

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deseq2 likelihood ratio rna seq wald test

updated 4.6 years ago by Michael Love 41k • written 4.6 years ago by adeler001 • 0

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944

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volcano plot rna seq

updated 4.7 years ago by Michael Love 41k • written 4.7 years ago by adeler001 • 0

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1.3k

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limma voom RNA Seq Time-course experiments

updated 4.9 years ago by Aaron Lun ★ 28k • written 4.9 years ago by mahes.muniandy • 0

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960

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RNA seq wgcna

updated 4.9 years ago by Peter Langfelder ★ 3.0k • written 4.9 years ago by agustin.gonvi ▴ 20

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1.9k

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rna seq trimmomatic trimming adapter trimming paired analysis

5.0 years ago Mozart ▴ 30

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1.6k

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heatmap.2 hierarchical clustering microarray RNA seq DEG

6.2 years ago lawarde.ankita1 ▴ 30

13 results • Page 1 of 1

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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.

Comment: Limma, eBayes different sample size of groups and adjustment by XW • 0

Could you explain more about how the analysis self-correct the different sample sizes when calling DEGs in limma? 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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