Bioconductor STRINGTIE

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280

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stringtie IsoformSwitchAnalyzeR pfamAnalyzeR gtf

updated 5 months ago by James W. MacDonald 65k • written 5 months ago by sumitra.20 • 0

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726

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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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ballgown StringTie galaxy rnaseq

updated 22 months ago by Kevin Blighe ★ 3.9k • written 3.8 years ago by lakshmi9c • 0

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1.3k

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isoform RNA-seq hisat2 stringtie ballgown

3.6 years ago ra711 • 0

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3.5k

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deseq2 StringTie RNA-seq normalisation

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

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1.7k

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featureCount rna-seq gene_id re_gene_id stringtie

updated 5.3 years ago by Wei Shi ★ 3.6k • written 5.3 years ago by IRAIA.MAIALEN • 0

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1.3k

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tximport stringtie RNA-seq analysis

updated 5.5 years ago by James W. MacDonald 65k • written 5.5 years ago by Mithil Gaikwad • 0

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4.4k

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prepDE STRINGTIE deseq2

updated 5.6 years ago by Michael Love 41k • written 5.6 years ago by Nancy ▴ 10

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1.5k

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tximport stringtie

6.2 years ago • updated 6.0 years ago matrs ▴ 10

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1.8k

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hisat2 stringtie ballgown RNAseq

6.2 years ago • updated 6.0 years ago Nancy ▴ 10

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1.3k

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Ballgown Stringtie DEG rnaseq

6.0 years ago vharshavardhanan • 0

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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 7.2 years ago by linda.boshans • 0

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1.4k

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stringtie illumina hisat2 ballgown

updated 6.5 years ago by k.vitting.seerup ▴ 120 • written 6.5 years ago by amy16 • 0

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5.7k

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ballgown stringtie

updated 7.2 years ago by linda.boshans • 0 • written 8.2 years ago by bhawley1991 ▴ 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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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

16 results • Page 1 of 1

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Comment: Deseq2 and Normalization of RNA sequencing data by kcarey • 0

Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …

Answer: NEED FOR NESSASORY HELP by Gordon Smyth 50k

Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…

Answer: Gene-by-sample covariates in limma by Gordon Smyth 50k

Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…

Answer: Why does GSEA on edgeR results for randomized samples give highly significant p- by Gordon Smyth 50k

You have discovered something that I have pointed out many times on this forum. fgsea does not implement the classic GSEA method published …

Comment: Once again a "Model matrix not full rank" by James W. MacDonald 65k

In that case both time and treatment are identical things, so choose one and go with it.

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Bioconductor 3.19 is Released!

A: Error in DESeqDataSet : some values in assay are not integers

Bioconductor 3.19 is Released!

Answer: DEseq2 coefficient

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