User: dpc

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dpc150
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150
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Location:
India
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6 days, 2 hours ago
Joined:
7 months ago
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d**********@phd.nitdgp.ac.in

Posts by dpc

<prev • 165 results • page 1 of 17 • next >
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Statistical analysis and visualization of HUMANnN3 output by MaAsLin2
... 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 ...
maaslin written 13 days ago by dpc150
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Change a column name according to the file name
... 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 ...
bash written 14 days ago by dpc150 • updated 14 days ago by RamRS30k
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Comment: C: problem in generating correlation heatmap with significance level
... 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 dpc150
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Comment: C: Can I use pseudocounts for differential abundance of OTUs?
... 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 dpc150
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problem in generating correlation heatmap with significance level
... 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 ...
heatmap written 20 days ago by dpc150 • updated 19 days ago by regmkbl66k
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How to show significance value (P value) in heatmap cells generated with pheatmap?
... 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 ...
R pheatmap written 22 days ago by dpc150
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Comment: C: Can I use pseudocounts for differential abundance of OTUs?
... 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 dpc150
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Comment: C: Can I use pseudocounts for differential abundance of OTUs?
... Do you have any idea how can I find out (statistically) the differentially abundant taxa from metaphlan output? ...
written 23 days ago by dpc150
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Comment: A: (Cytoscape) How to create a legend for edge width?
... 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 dpc150
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Cytoscape: how to make some node labels vertical?
... 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 ...
cytoscape written 5 weeks ago by dpc150 • updated 5 weeks ago by scooter380

Latest awards to dpc

Supporter 11 weeks ago, voted at least 25 times.
Centurion 3 months ago, created 100 posts.
Popular Question 3 months ago, created a question with more than 1,000 views. For ERROR: "ascp: Failed to open TCP connection for SSH, exiting."
Rising Star 3 months ago, created 50 posts within first three months of joining.

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