User: Lucy

gravatar for Lucy
Lucy40
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40
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New User
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Last seen:
2 months, 3 weeks ago
Joined:
2 years, 1 month ago
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l*******@gmail.com

Posts by Lucy

<prev • 55 results • page 1 of 6 • next >
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Comment: C: Correlation plot sized by another variable
... Thank you Thias, the ggplot approach works really well. One question: what would be the easiest way to just visualise the upper triangle of the plot as they are correlations, so the upper and lower triangles provide identical information. ...
written 11 weeks ago by Lucy40
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Comment: C: Correlation plot sized by another variable
... Thank you, which argument is it that you use to size by another matrix? ...
written 12 weeks ago by Lucy40
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Comment: C: Correlation plot sized by another variable
... Before running ggplot, I did: cluster_markers$base_cluster <- factor(cluster_markers$base_cluster, levels = hclust_order, ordered = TRUE) Where `hclust_order` is the cluster names in the order from hclust. ...
written 12 weeks ago by Lucy40
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Comment: C: Correlation plot sized by another variable
... Thank you - I tried this but it didn't turn out right! I separately calculated a distance matrix from cormat and then performed hclust on this. Then took the row order and used this to order the base_cluster factor in cluster_markers. But the points were no longer restricted to the upper triangle ...
written 12 weeks ago by Lucy40
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Comment: A: Correlation plot sized by another variable
... ggcorrplot(as.matrix(cormat), type = "upper", ggtheme = ggplot2::theme_classic(), hc.order = TRUE) + scale_fill_gradient(breaks = c(0, 1), limit = c(0, 1)) This works well but unfortunately I can't work out how to size the squares by another matrix. Same with the follow ...
written 12 weeks ago by Lucy40
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Correlation plot sized by another variable
... Hi, Sorry for the broad question, but I am trying to generate a correlation plot that is coloured by the correlation values but where the tiles (preferably circles) are sized by another variable. I would like the correlation matrix to be ordered by hclust. I have been playing around with corrplot ...
correlation plot ggplot2 corrplot written 12 weeks ago by Lucy40 • updated 12 weeks ago by Matthias Zepper70
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Comment: C: findGenomeMotif.pl in Homer couldn't work properly
... Hi, Did you ever solve this? I have the same problem. Many thanks, Lucy ...
written 10 months ago by Lucy40
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Comment: C: problem with HOMER findMotifsGenome.pl
... Hi, I am having the same problem. Did you ever work out what the problem was? Many thanks, Lucy ...
written 10 months ago by Lucy40
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Comment: C: Which counts to use for RNA-seq heatmap and PCA?
... `heatmap.2(tmm_log, trace = "none", col = bluered(20), scale = "row")` ...
written 10 months ago by Lucy40
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Comment: A: Which counts to use for RNA-seq heatmap and PCA?
... Thank you, I am currently scaling by row using the heatmap.2 function from the gplots package. Is this an acceptable way to do the scaling? ...
written 10 months ago by Lucy40

Latest awards to Lucy

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