User: huynguyen96.dnu
huynguyen96.dnu • 10
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- Vietnam
- Last seen:
- 3 weeks, 6 days ago
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- 4 months ago
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Posts by huynguyen96.dnu
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... Many thanks for your helps. It is kind of a fast way to visualize what I want. But I've faced with a new problem above. Can you help me to solve it? ...
written 6 weeks ago by
huynguyen96.dnu • 10
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... Hi @Kevin, my heatmap works well when following your advice:
> Heatmap(plotTOM,
> show_row_names = TRUE, show_column_names = TRUE,
> row_dend_reorder = TRUE, column_dend_reorder = TRUE,
> clustering_distance_rows = function(x) as.dist(1-TOMsimilar ...
written 6 weeks ago by
huynguyen96.dnu • 10
• updated
6 weeks ago by
RamRS ♦ 26k
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... Hi there, I constructed a co-expression network using WGCNA. As you could know, we identify co-expressed gene modules by performing hierarchical clustering method based on TOM-based dissimilarity. So, a distance matrix was computed here to draw a dendrogram of eigen-genes is TOM-based dissimilarity. ...
written 6 weeks ago by
huynguyen96.dnu • 10
• updated
6 weeks ago by
RamRS ♦ 26k
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Comment:
C: Interpretation of hazard ratio
... Many thanks @Haci for your clear explantation. ...
written 9 weeks ago by
huynguyen96.dnu • 10
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... Yes. I think so. You asked many questions which were so hard to instruct as describing text whereas some threads showed you had no experiences at all about bioinformatics. The best advice is to look for a local bioinformatician who can give you a step-by-step guide. ...
written 9 weeks ago by
huynguyen96.dnu • 10
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... Hi there, I have been running survival analysis on individual genes of interest. Firstly, I divided them into two groups: Up-regulated and Down-regulated gene. And then, I run SA on each them. This is one of the many results I got.
![https://imgur.com/vvjAMwQ][1]
I set the event: die =1, survive= ...
written 9 weeks ago by
huynguyen96.dnu • 10
• updated
9 weeks ago by
Haci • 340
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... OMG, I forgot that Pearson corelation values can be negative. Thanks for your helps again! ...
written 10 weeks ago by
huynguyen96.dnu • 10
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... Many thanks for your helpful answer. I got additionally one question for u, sir. Is it normal or not that dendrogram height can above 1? I did follow a step-by-step tutorial. Something like that:
![https://imgur.com/vJKP0VA.png][1]
https://imgur.com/vJKP0VA
[1]: https://imgur.com/vJKP0VA ...
written 10 weeks ago by
huynguyen96.dnu • 10
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... Hi there, I have just constructed my own nomogram using *cph* function. Next, I compute C-index through D_xy value using the function *validate* of the package *rms* . It looks like:
# survival rate
mod.cox <- cph(formula = Surv(time, status) ~ age + weight,
data=train, x ...
written 10 weeks ago by
huynguyen96.dnu • 10
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... This is my fault. the error is solved well ...
written 10 weeks ago by
huynguyen96.dnu • 10
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