Bioconductor SIM

Showing : SIM • reset

votes

replies

views

PhenoGeneRanker BSgenome.Osativa.MSU.MSU7 mouse.db0 SIM

9 months ago Abu 0

votes

replies

2.5k

views

SIM pathview SIM pathview

11.8 years ago Luo Weijun ★ 1.6k

votes

replies

1.4k

views

probe affy oligo SIM farms probe affy oligo SIM farms

12.1 years ago Djork Clevert ▴ 210

votes

replies

4.0k

views

Pathways graph PROcess SIM gage pathview Pathways graph PROcess SIM gage pathview

updated 12.3 years ago by Ed ▴ 230 • written 12.3 years ago by Luo Weijun ★ 1.6k

votes

replies

1.3k

views

SNP Annotation probe annotate SIM SNP Annotation probe annotate SIM

13.1 years ago Guest User ★ 13k

votes

1.9k

views

Pathways Organism SIM KEGGgraph Pathways Organism SIM KEGGgraph

updated 16.0 years ago by Marc Carlson ★ 7.2k • written 16.0 years ago by Fraser Sim ▴ 270

votes

replies

2.1k

views

Rgraphviz SIM Rgraphviz SIM

updated 16.6 years ago by Patrick Aboyoun ★ 1.6k • written 16.6 years ago by ravi ▴ 130

votes

replies

2.3k

views

Rgraphviz SIM Rgraphviz SIM

updated 16.8 years ago by Martin Morgan 25k • written 16.8 years ago by Sim, Fraser ▴ 350

votes

replies

1.9k

views

genefilter affy limma GeneSpring affylmGUI GLAD SIM genefilter affy limma GeneSpring

17.5 years ago Mark Cowley ▴ 400

9 results • Page 1 of 1

Recent ...

Replies

Answer: PTM analysis in LIMPA by Gordon Smyth 53k

For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…

Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

Answer: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k

It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …

Comment: problem reading bam files into nucleR by efoss ▴ 10

I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…

Answer: two questions about limma by Gordon Smyth 53k

Answered here: https://support.bioconductor.org/p/16318/

Votes

Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

Awards • All

Commentator to sina.nassiri ▴ 130