User: huynguyen96.dnu
huynguyen96.dnu • 20
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- Vietnam
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- 2 weeks, 3 days ago
- Joined:
- 9 months, 2 weeks ago
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Posts by huynguyen96.dnu
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... Hi everyone,
I have done research on using single and integrative analyses on -omic datasets, including gene expression (EXP), copy number alteration (CNA), and methylation (MET), to classify breast cancer patients. Right now, I coded in R as well as drafted my manuscript already, and sent it out t ...
written 5 weeks ago by
huynguyen96.dnu • 20
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... Hi all, I used a clustering tool to partition samples into two groups. Next, I want to see the statistical differences between them in terms of clinical features: Lymph nodes (continuous variables) and tumor stages (categorical variables)
Now, I used Kruskal Wallis test for the two clinical feature ...
written 3 months ago by
huynguyen96.dnu • 20
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... I think this question is kind of can-not-answer one. It depends greatly on your interest and expertise in either R or Python. ...
written 3 months ago by
huynguyen96.dnu • 20
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... Sorry, it seems that your words are wordy, it is hard to understand what you want to present. Correct me if I am wrong.
Briefly, you have a matrix whose rows are patients, columns are genes, elements are expression levels (up or down regulated)? now, you want to related the expression levels of e ...
written 3 months ago by
huynguyen96.dnu • 20
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... 1-Assure that you divided the above data frame into two sub data frames: one (I call it as '*df*' in R) whose 'Sample' column only includes group1 (drug_1) versus group3 (WT), the other (I call it as '*df1*' in R) whose 'Sample' column only includes group2 (drug_2) versus group3 (WT)
Then, for the f ...
written 3 months ago by
huynguyen96.dnu • 20
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... I'm having a list of Pearson's correlation coefficients (r). Then, I performed the Fisher's Z transformation using the formula: z = 1/2 ln(1+r/1-r). Now, I want to compute corresponding p-values for each identified z score. After referring to Google, I detect a formula to compute p-value (two-sided) ...
written 3 months ago by
huynguyen96.dnu • 20
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... 1. To my understanding, drug_1, drug_2 and WT are independent groups/labels. Assure that your wanting to compare overall survival of patients after taking orally drug_1 versus WT, and those after taking orally drug_2 versus WT, so the question is that how many patients are in group 1 (drug_1), group ...
written 3 months ago by
huynguyen96.dnu • 20
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... Thanks a a lot. This is the answer I'm looking for. ...
written 4 months ago by
huynguyen96.dnu • 20
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... Annotation:
> ha = HeatmapAnnotation(IntCl = info2$groups,
> CNAcorCl = info$groups,
> METcorCl = info1$groups,
> col = list(IntCl = c("1" = "turquoise", "2" = "pink"),
> CNAcor ...
written 4 months ago by
huynguyen96.dnu • 20
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... That's right, this is a simply but perfect solution! ...
written 4 months ago by
huynguyen96.dnu • 20
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