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Ascona Workshop “Biological systems: from first principles to data-driven modelling and back” 27. 3. - 1. 4. 2022
theory
modeling
statistics
ascona
Workshop
3.1 years ago • updated 22 months ago
Wolfgang Huber
★ 13k
2
votes
2
replies
1.1k
views
DSS understanding delta option and posterior probability
posterior pobability
statistical test
theory
updated 4.6 years ago by
James W. MacDonald
67k • written 4.6 years ago by
stephanie.rialle
• 0
11
votes
5
replies
8.1k
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Theoretical WGCNA Question
WGCNA
Theory
Scale-Free Topology
updated 7 months ago by
Garrett
• 0 • written 9.7 years ago by
brohawndg
▴ 150
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Comment: Create Illmina bead summary data
by
Liu
• 0
Hi! Yes, thank you! I completely agree. I am just curious about how these two files are processed with AVG_Gre and detection p-value. I am …
Answer: Epic v2 Annotation CpG_maf source?
by
James W. MacDonald
67k
Those all come from dbSNP by way of UCSC. [See here][1], particularly lines 114 and onward. Here is no MAF for a CpG. The MAF is for the…
Comment: Deseq2 res Function
by
James W. MacDonald
67k
In addition to Mike's comment, do note that if you are generating a heatmap based on the set of significant genes, the direction of your co…
Answer: Struggle with the replicates of epic array data
by
James W. MacDonald
67k
You shouldn't be using beta values for a linear model that assumes a unimodal, untruncated distribution (beta values are strictly on (0-1) …
Comment: Identifying potentially associated gene set to drug response using GSVA
by
Robert Castelo
★ 3.4k
So, if I understand correctly, you derived GSVA scores from gene sets corresponding somehow to drugs in your RNA-seq data. Since GSVA score…
Votes
Appropriate use of the function treat of the limma package
Comment: Is it recommended to analyze different tissues together when using edgeR
Answer: Deseq2 res Function
Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification
Answer: ANOVA like approach of edgeR
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