Tagged Questions

2
votes
0answers
124 views

PLINK meta-analysis method

I am trying to determine exactly what method PLINK uses for meta-analysis. I can't find it in the program documentation/FAQ anywhere. Inverse variance? (given the meta command only requires effect ...
3
votes
1answer
194 views

How do I get a $p$-value from the Cochran-Armitage trend test?

So, I'm working with GWAS SNP data and want to perform several tests for association between genotype and phenotype. There are two phenotypes (case and control) and 2 or three genotypes. Most of them ...
3
votes
1answer
340 views

Use of a negative binomial model for fitting alternative splicing event

I am working on RNA-Seq data (on alternative splicing). Let's say I am looking at a particular type of alternative splicing event - exon skipping. For each intron (or junction), I look if it is ...
3
votes
0answers
245 views

Using the hypergeometric distribution for skipping events in transcriptome sequencing

My question is inspired by this post. However, its a bit more complicated than that to explain. I hope I succeed. I work with RNA-Seq data on alternative splicing in plants. For this discussion, lets ...