Bioconductor Stringtie

Showing : Stringtie • reset

votes

replies

1.5k

views

tximport stringtie

6.1 years ago • updated 5.9 years ago matrs ▴ 10

votes

1.7k

views

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

votes

replies

5.7k

views

ballgown stringtie

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

vote

1.4k

views

stringtie illumina hisat2 ballgown

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

vote

replies

1.4k

views

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

votes

4.3k

views

prepDE STRINGTIE deseq2

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

votes

replies

1.3k

views

tximport stringtie RNA-seq analysis

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

votes

replies

3.4k

views

deseq2 StringTie RNA-seq normalisation

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

votes

replies

1.4k

views

ballgown StringTie galaxy rnaseq

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

votes

replies

1.3k

views

isoform RNA-seq hisat2 stringtie ballgown

3.5 years ago ra711 • 0

votes

replies

257

views

stringtie IsoformSwitchAnalyzeR pfamAnalyzeR gtf

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

votes

704

views

DESeq2 TPM rawcounts StringTie

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

votes

replies

1.8k

views

ballgown stringtie

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

votes

replies

2.5k

views

ballgown biologicalreplicates technical replicates stringtie

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

votes

replies

1.8k

views

hisat2 stringtie ballgown RNAseq

6.2 years ago • updated 5.9 years ago Nancy ▴ 10

votes

replies

1.3k

views

Ballgown Stringtie DEG rnaseq

6.0 years ago vharshavardhanan • 0

16 results • Page 1 of 1

Recent ...

Replies

Comment: DESeq filtering specific to contrasts by Michael Love 41k

It will likely not filter it out, but really the per-dataset details would affect the results.

Comment: DESeq filtering specific to contrasts by Carlin95 • 0

Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…

Comment: FilterByExpr low counts with small sample size by Jonathan ▴ 10

Thank you for your answer; However, I have some follow-up questions. Following up in In your [1-2-3 article][1], you say that > "... the…

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Seyram M. • 0

Thank you very much for your reply! I will do so. Kind regards, Seyram

Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0` by isaac.vock • 0

Thank you for your response. I can confirm that setting `-t exon` and/or removing `-s 1` and adding `-O` has no impact on the number of suc…

Votes

Install/Switch between multiple versions of R, Rstudio, and Bioconductor

A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

Comment: significant difference of p-values with dream() after updating VariancePartition

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

Awards • All