Bioconductor Stringtie

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5.8k

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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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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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1.5k

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tximport stringtie

6.2 years ago • updated 6.0 years ago matrs ▴ 10

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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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727

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DESeq2 TPM rawcounts StringTie

updated 20 months ago by Michael Love 42k • written 20 months ago by snijesh ▴ 20

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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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1.4k

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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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1.4k

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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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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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3.5k

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deseq2 StringTie RNA-seq normalisation

updated 4.4 years ago by Michael Love 42k • written 4.4 years ago by JindrichK • 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 3.8 years ago by lakshmi9c • 0

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4.4k

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prepDE STRINGTIE deseq2

updated 5.6 years ago by Michael Love 42k • written 5.6 years ago by Nancy ▴ 10

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1.4k

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Ballgown Stringtie DEG rnaseq

6.0 years ago vharshavardhanan • 0

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285

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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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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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isoform RNA-seq hisat2 stringtie ballgown

3.6 years ago ra711 • 0

16 results • Page 1 of 1

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Comment: Cannot connect to ExperimentHub server by Jiayu • 0

Many thanks and it also resolved the same issue for me!

Comment: Help with running egsea() by Chris • 0

I tried egsea.ma and got this error: gsa = egsea.ma(numeric_matrix, vector_group, probe_annotation, contrasts = contrast_matrix, gs.an…

Comment: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by angelathuynh5 • 0

Thank you for your response. To clarify, the process of making a heatmap performs rowscaling so it takes the value - (mean/std). And to res…

Comment: Method to find pathways different between 2 groups by Gordon Smyth 50k

sigPathway is another method that does not account for inter-gene correlation and which gives inflated significance, as we showed in our 20…

Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k

I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?

Votes

Answer: minfi latest update for EPIC V2 chip

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

Answer: Cannot connect to ExperimentHub server

Answer: confused with tximport counts abundance using salmon input

Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call

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Popular Question to Gyan Prakash Mishra ▴ 10