Bioconductor Isoforms

Showing : isoforms • reset

votes

replies

1.3k

views

isoforms DESeq2

3.9 years ago arfranco ▴ 130

vote

replies

3.6k

views

RATs RNA-Seq Isoforms DTU expression

updated 6.6 years ago by fruce_ki ▴ 20 • written 6.6 years ago by UserAnonyme • 0

votes

replies

2.2k

views

isoforms diffrential expression noncoding rna TSIS isoformswitchanalyzeR

7.8 years ago rbenel ▴ 50

votes

replies

1.4k

views

dexseq differential isoform usage isoforms summarizeoverlaps granges

7.9 years ago A ▴ 60

votes

replies

1.9k

views

cummerbund heatmap isoforms transcript_id

8.9 years ago domenico.somma • 0

votes

replies

4.7k

views

dexseq bitseq cuffdiff Differential exon usage isoforms

10.7 years ago • updated 10.6 years ago elle ▴ 10

votes

replies

3.2k

views

edgeR ruvseq rnaseq isoforms

10.7 years ago sergio.espeso-gil • 0

vote

replies

1.8k

views

DEXSeq transcripts isoforms

updated 10.8 years ago by Alejandro Reyes ★ 1.9k • written 10.8 years ago by peter_venhuizen • 0

8 results • Page 1 of 1

Recent ...

Replies

Comment: Which preprocessing steps are needed before running limpa? by miro165sabo • 0

Hi @gordonsmyth, thank you a lot for very fast and valuable response. I edited the question to provide more details.

Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ? by Gordon Smyth 53k

I tend to use dpcCN(), because it more robust than dpc() to experiments with lots of samples and big differences between samples. You coul…

Answer: Which preprocessing steps are needed before running limpa? by Gordon Smyth 53k

Please see the example limpa analyses given at <http://github.com/smythlab/limpa>, especially the kidney cancer case study. limpa does not…

Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name by Korneel • 0

Thanks for the quick reply! If I understand correctly, I think if I keep track of the full lineage, I shouldn't have any risk of collapsin…

Comment: Pathway abundance data from Curatedmetagenomics by yesquokkan • 0

Hello, I was also wondering about the same issue. Did you figure it out?

Votes

Answer: Which preprocessing steps are needed before running limpa?

Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?

Answer: Which preprocessing steps are needed before running limpa?

Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?

Awards • All

Scholar to Gordon Smyth 53k

Popular Question to Peter Hickey ▴ 760