User: dpc
dpc • 150
- Reputation:
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- India
- Last seen:
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- Joined:
- 7 months ago
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Posts by dpc
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... Hi there!!!
I have two groups of samples: Case and Control. I have analyzed the shotgun metagenomic sequences with HUMAnN3 and got the three output files (gene family abundances, pathway abundances, path coverage) for each of the samples. Now I want to find out the differentially abundant gene famil ...
written 13 days ago by
dpc • 150
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... I have around 52 files named like: `ERR260147.genefamilies.tsv`, `ERR260158.genefamilies.tsv` `ERR275198.genefamilies.tsv`, etc and each file has two columns. I want to change the second column name of each file according to the name of the file. For example, the second column name for file `ERR2601 ...
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... Thanks Kevin for your suggestion and help. I will definitely take a look on it and let you know. Actually I want only the stars to be reflected inside the cells of the heatmap, not the values. I want this because I have a correlation heatmap of 150 microbes X 150 microbes it is quite large and the c ...
written 19 days ago by
dpc • 150
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... Thanks Antonio. I am deleting the question here. I have posted it as a new question [here][1] . I will like to draw your attention to the query.
Thanks,
dpc
[1]: https://www.biostars.org/p/464247/ ...
written 20 days ago by
dpc • 150
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... Hi there!!! I want help regarding the correlation heatmap generation showing the significance level within the heatmap cells. I want to show the P-value <0.05 as "*" and P-value <0.001 as "**".
For that, I am following the script from [here][1]. You can find the script under the header "Star ...
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... Hi there!!! I am using pheatmap package to generate heatmap from correlation value. I want to show the significance level as '*' (P value < 0.05) and '**' (P value <0.01) within the cells. How can I do that? Can anyone please help?
Thanks,
DC7
...
written 22 days ago by
dpc • 150
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... Thanks, Antonio. Yes, I have already used it. I asked just to have a cross-check my data with another method if available. ...
written 22 days ago by
dpc • 150
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... Do you have any idea how can I find out (statistically) the differentially abundant taxa from metaphlan output? ...
written 23 days ago by
dpc • 150
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... Yes scooter sir. I am also facing the same issue. I can add legend for the "node size". But for the "edge colour mapping" there no option is being shown in the "legend panel" and thus cannot be added to the image.
How to deal with this?
Thanks,
dpc ...
written 4 weeks ago by
dpc • 150
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... Hi there!!! I have generated a cytoscape network where the node labels are horizontal (passthrough). I have arranged the nodes in a circular layout and thus some of the labels overlapped over other labels. How can I make these labels (the overlapping ones) vertical so that they don't overlap?
Thank ...
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