Bioconductor Stringtie

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5.7k

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ballgown stringtie

updated 7.1 years ago by linda.boshans • 0 • written 8.1 years ago by bhawley1991 ▴ 10

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2.5k

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ballgown biologicalreplicates technical replicates stringtie

updated 6.4 years ago by Alyssa Frazee ▴ 210 • written 7.1 years ago by linda.boshans • 0

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1.8k

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ballgown stringtie

updated 7.8 years ago by Jeff Leek ▴ 650 • written 7.8 years ago by alva.james • 0

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1.3k

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tximport stringtie RNA-seq analysis

updated 5.4 years ago by James W. MacDonald 65k • written 5.4 years ago by Mithil Gaikwad • 0

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1.4k

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ballgown StringTie galaxy rnaseq

updated 22 months ago by Kevin Blighe ★ 3.9k • written 3.7 years ago by lakshmi9c • 0

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3.4k

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deseq2 StringTie RNA-seq normalisation

updated 4.3 years ago by Michael Love 41k • written 4.3 years ago by JindrichK • 0

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1.5k

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tximport stringtie

6.1 years ago • updated 5.9 years ago matrs ▴ 10

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1.4k

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ballgown stringtie voom limma differential gene expression rnaseq

updated 7.6 years ago by Alyssa Frazee ▴ 210 • written 7.6 years ago by jcalis ▴ 10

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703

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DESeq2 TPM rawcounts StringTie

updated 20 months ago by Michael Love 41k • written 20 months ago by snijesh ▴ 20

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1.4k

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stringtie illumina hisat2 ballgown

updated 6.4 years ago by k.vitting.seerup ▴ 120 • written 6.4 years ago by amy16 • 0

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4.3k

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prepDE STRINGTIE deseq2

updated 5.5 years ago by Michael Love 41k • written 5.5 years ago by Nancy ▴ 10

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1.7k

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featureCount rna-seq gene_id re_gene_id stringtie

updated 5.2 years ago by Wei Shi ★ 3.6k • written 5.2 years ago by IRAIA.MAIALEN • 0

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1.3k

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Ballgown Stringtie DEG rnaseq

5.9 years ago vharshavardhanan • 0

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1.3k

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isoform RNA-seq hisat2 stringtie ballgown

3.5 years ago ra711 • 0

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255

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stringtie IsoformSwitchAnalyzeR pfamAnalyzeR gtf

updated 4 months ago by James W. MacDonald 65k • written 4 months ago by sumitra.20 • 0

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1.8k

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hisat2 stringtie ballgown RNAseq

6.2 years ago • updated 5.9 years ago Nancy ▴ 10

16 results • Page 1 of 1

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Comment: Error in champ.load(): The following specified files do not exist by Basti ▴ 760

The error stems from the Basename column, please see solution here : https://support.bioconductor.org/p/p132482/

Comment: FilterByExpr low counts with small sample size by Gordon Smyth 50k

As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…

Comment: Batch correction and repeated measures by Gordon Smyth 50k

In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…

Comment: Methylation Analysis experiment design using Limma by Gordon Smyth 50k

I don't analyse methylation arrays so cannot advise on specific limma settings for that type of data. Please follow the advice of the methy…

Comment: Light difference when using coef vs omit a group when compare 3 groups. by Chris • 0

Hi Gordon, thank you so much for further guidance! I discussed this issue with psychology doctor who treat Alzheimer patients and they don'…

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Answer: How many of my genes from my gene list are in each KEGG pathway?

Comment: Light difference when using coef vs omit a group when compare 3 groups.

DESeq2 variance transformation error and plot dispersion Estimate

A: DESeq2 variance transformation error and plot dispersion Estimate

ensembl to hgnc symbols creates duplicates

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