User: michelle.piquet

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Posts by michelle.piquet

<prev • 24 results • page 2 of 3 • next >
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Comment: C: Volcano plot for multiple clusters
... v1_macrophage <- read.table("cluster1_marcophage.csv", header = T, sep = ",") v2_macrophage <- read.table("cluster2_marcophage.csv", header = T, sep = ",") Got this error for the following command: Error in `$<-.data.frame`(`*tmp*`, "wrapvp", value = list(x = 0.5, y = 0.5, : replaceme ...
written 12 weeks ago by michelle.piquet10
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Comment: C: Volcano plot for multiple clusters
... I uploaded only 2 of the cluster as a test, ran the following code and got the following error. grid.arrange(v1_macrophage, v2_macrophage, ncol = 2, nrow = 2, top = textGrob('Macrophages', just = c('center'), gp = gpar(fontsize = 32))) Error in `$<-.data.frame`(`*tmp*`, "wrapvp", value = ...
written 12 weeks ago by michelle.piquet10 • updated 12 weeks ago by Kevin Blighe55k
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Comment: C: Volcano plot for multiple clusters
... Hi TriS So in the "myCluster" section put all the clusters that I want? I have 20 clusters within the differential expression file, so do fill = Cluster 1 Log2 fold change, Cluster 1 Adjusted p value, etc? The file is labeled with the following headers... Feature Name Cluster 1 Mean Counts Clust ...
written 12 weeks ago by michelle.piquet10
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Comment: C: Volcano plot for multiple clusters
... Hi Kevin, So create a volcano plot for each of my 20 clusters and then combine them with the code you gave me? Thanks ...
written 12 weeks ago by michelle.piquet10
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Volcano plot for multiple clusters
... Hello, I am trying to make a volcano plot for different clusters. I have 2 conditions, untreated vs. treated. I have a differential expression excel file that cellranger generated for me but within the file it has multiple clusters each which have a fold change and p value. How do I create a volcano ...
R volcanoplot rna-seq written 12 weeks ago by michelle.piquet10 • updated 12 weeks ago by TriS4.1k
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Comment: A: EnhancedVolcano plot error: Log2foldchange is not numeric!
... I ran this code and it works but doesn't show the gene names. EnhancedVolcano(gene_list, lab = rownames(gene_list), x = 'Cluster.1.Log2.fold.change', y = 'Cluster.1.Adjusted.p.value', xlim = c(-5,8), aes(label = Feature.Name)) Any suggestions? ...
written 3 months ago by michelle.piquet10 • updated 3 months ago by genomax78k
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Comment: C: EnhancedVolcano plot error: Log2foldchange is not numeric!
... I started again from the beginning. I loaded my data with: gene_list <- read.table("differential_expression_macrophage.csv", header = T, sep = ",") 31328 obs of 62 variable. Then tried the volcano plot code and I'm still getting the same error. is.numeric(res$Cluster.1.Log2.fold ...
written 3 months ago by michelle.piquet10 • updated 3 months ago by zx87549.0k
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Comment: C: EnhancedVolcano plot error: Log2foldchange is not numeric!
... I upload a new data set and and now I get `TRUE` still get the same error. is.numeric(res$Cluster.1.Log2.fold.change) [1] TRUE Error in EnhancedVolcano(x, lab = rownames(x), x = "Cluster 1 Log2 fold change", y = "Cluster 1 Adjusted pvalue", : Log2foldchange is not numeric! ...
written 3 months ago by michelle.piquet10 • updated 3 months ago by RamRS25k
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Comment: C: EnhancedVolcano plot error: Log2foldchange is not numeric!
... I did and ran the same code as before and get the same error. ...
written 3 months ago by michelle.piquet10
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Comment: C: EnhancedVolcano plot error: Log2foldchange is not numeric!
... Yes, they are stored the way they are named. ...
written 3 months ago by michelle.piquet10

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