Bioconductor Sigpathway

Showing : sigpathway • reset

votes

replies

828

views

pathway analysis sigpathway Genesets_EntrezGeneIDs.RData

6.2 years ago maria • 0

votes

replies

3.1k

views

sigPathway sigPathway

12.6 years ago Voke AO ▴ 760

votes

replies

2.2k

views

goTools sigPathway topGO goTools sigPathway topGO

updated 14.2 years ago by Michael Dondrup ▴ 550 • written 14.2 years ago by Veerendra GP ▴ 100

votes

replies

1.1k

views

Microarray Annotation sigPathway Microarray Annotation sigPathway

14.6 years ago 山中程 ▴ 10

votes

replies

924

views

sigPathway sigPathway

15.5 years ago Adrian Johnson ▴ 330

votes

replies

889

views

sigPathway sigPathway

16.6 years ago Srinivas Iyyer ▴ 600

votes

replies

1.0k

views

sigPathway sigPathway

updated 16.9 years ago by James W. MacDonald 67k • written 16.9 years ago by Srinivas Iyyer ▴ 600

7 results • Page 1 of 1

Recent ...

Replies

Comment: Identifying potentially associated gene set to drug response using GSVA by coolmathforkids2 • 0

It is always helpful to see clear explanations and solutions for bioconductor related challenges. Posts like this make the community a valu…

Comment: minfi latest update for EPIC V2 chip by macdonaldfrench7286566 • 0

Yes, the most updated analysis for the EPIC V2 chip using the minfi package still involves using the annotations provided by jokergoo. *Th…

Answer: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Gordon Smyth 52k

To compute CPM values from edgeR: ``` y <- DGEList(counts = counts, samples = samples, genes = genes, group = samples$Disease_status) y <- …

Comment: edgeR + tximport: calcNormFactors and the usage of offsets by Gordon Smyth 52k

Follow the vignette. It explains how to call edgeR's cpm function to use the offsets.

Comment: edgeR + tximport: calcNormFactors and the usage of offsets by Andre • 0

But if i want to do another type of analysis like Wilcoxon/Mann-Whitney and want to incorporate salmon offset can i simply use the cpm func…

Votes

A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor

A: RNA-seq Normalisation - normalise all samples in experiment or only the ones use

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio

Awards • All

Popular Question to Vincent J. Carey, Jr. 6.7k