User: camillab.

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camillab.30
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Posts by camillab.

<prev • 65 results • page 1 of 7 • next >
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Comment: C: Volcano plot with highlighted significantly up/down regulated genes with specifi
... Hi ! I don't disagree. I just want to specify that I thought was better to put it here since I did not ask only about the volcano plot but I have also asked if there were any packages / type of plot I don't know that could give me the result desired. :) ...
written 4 days ago by camillab.30
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Comment: C: Volcano plot with highlighted significantly up/down regulated genes with specifi
... But is it not more confusing if I post it in both sites? ...
written 5 days ago by camillab.30
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Volcano plot with highlighted significantly up/down regulated genes with specific normalised reads value?
... Hi, Maybe a naive question but I would like to know if and how is possible to have a the volcano plot (potentially with `EnhancedVolcano` since it's a great package) with highlighted not only significant up/down regulated genes but also those genes that have normalised reads (FPKM) higher than a ...
R enhancedvolcano rna-seq plot written 5 days ago by camillab.30
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Comment: C: Big dataset how to plot gene expression differences?
... I did hierarchical cluster analysis and I found that a group samples (= replicates for the same condition) do not cluster as expected so I extracted the genes that are highly specific for that cluster / more dissimilar in those samples compared to the other and I wanted to plot them to see how they ...
written 8 days ago by camillab.30
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Comment: C: Big dataset how to plot gene expression differences?
... I did it but I wasn't really convinced by the results but I guess it's the only way to go ...
written 8 days ago by camillab.30
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Comment: C: Big dataset how to plot gene expression differences?
... what would you suggest instead? ...
written 8 days ago by camillab.30
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Big dataset how to plot gene expression differences?
... Hi, I have a big dataset with 51 samples (in columns) and more than a 1000 genes (in rows). Which plot should I use? Is there any way I can plot differences in gene expression (= reads not log2FC) across the different samples? the only solution I thought of so far is to plot each gene as barplot b ...
dataset plot R written 8 days ago by camillab.30
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Comment: C: How to identify which genes are responsible for the different cluster without P
... Hi (again), I tried with the `cutree` function (cut the dendogram in 5 cluster) but I got only this results no info about which gene contribute most apart that I guess are the samples in cluster 1 to contribute most: clu.k5 1 2 3 4 5 46 1 1 1 1 Where do I make mistake? her ...
written 9 days ago by camillab.30
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Comment: C: How to identify which genes are responsible for the different cluster without P
... I did it but I would like to be able to discriminate between differences across all samples (which I can do with "loading" in the PCA) and those between specific groups and I cannot do it with PCA. Like with the PCA in my example before I can find what I called macro-differences (red/pruple vs green ...
written 11 days ago by camillab.30
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Comment: C: How to identify which genes are responsible for the different cluster without P
... Do I need raw read to use with `DESeq2`, `edgeR` and `limma` right? ...
written 11 days ago by camillab.30

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