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User: Wuschel

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Wuschel • 170
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170
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Posts by Wuschel

<prev • 123 results • page 1 of 13 • next >
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How to download function of list of genes from Uniprot, Pathways from KEGG, and Intereactomes ?
... I have a list of genes (AGI). How can I download the information of all the genes at once from each website? 1. **Functions** from `Uniprot`, 2. **Pathways** from `KEGG`, 3. **Interacting proteins** `from https://biocyc.org` or `https://string-db.org/network/` ...
gene rna-seq written 1 day ago by Wuschel • 170
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Comment: C: How to get the order of clustered genes of heatmap.2 to a .csv file?
... Thanks a heap, Kevin :) Appreciate. ...
written 6 days ago by Wuschel • 170
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Comment: C: How to get the order of clustered genes of a heat map to a .csv file?
... Thanks Kevin, This also useful. I am looking into much more detailed out put. Not sure if this is possible in heatmap2. For selected cutoff (e.g. distance = 40), how can we separate the list of genes n that cluster? something like this, How to see the grouping of genes for each cluster in the o/p ...
written 6 days ago by Wuschel • 170
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Comment: C: How to get the order of clustered genes of a heat map to a .csv file?
... Thanks a heap, Kevin :) This is helpful. BTW, I did try this now. Since I have ~900 genes. it's too much for plotting in a diagram. Gow can I export these clustered genes to a csv file, in the same order as showing in the dendrogram?. ...
written 7 days ago by Wuschel • 170
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How to get the order of clustered genes of heatmap.2 to a .csv file?
... I have a data frame of omics data. Gene ids in rows (931), and samples in columns (15). > dim(my_data) # (rows columns) [1] 931 16 I created heatmap using `library(gplots)` cn=colnames(gdf1)[c(13:15,1:12)] col <- colorRampPalette(c("red","yellow","darkgreen"))(30) ...
R rna-seq written 7 days ago by Wuschel • 170 • updated 6 days ago by Kevin Blighe ♦ 48k
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Comment: C: Python Help: Plots are not appearing in the Spyder Console
... Yes, But still I do not see plots appearing in the console ...
written 15 days ago by Wuschel • 170
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Comment: C: Python Help: Plots are not appearing in the Spyder Console
... No luck shoujun, dosn't work bokeh.plotting.show(g) Traceback (most recent call last): File "", line 1, in bokeh.plotting.show(g) NameError: name 'bokeh' is not defined ...
written 15 days ago by Wuschel • 170
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Comment: C: Metabolic pathway Mapping
... Thank you Chirag. I'll have a look :) ...
written 15 days ago by Wuschel • 170
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Metabolic pathway Mapping
... I have a selected Arabidopsis Genome Initiative (AGI) list for RNA seq and proteomics data, how can I map them to a metabolic pathway maps (i.e TCA / Phitisynthesis, etc) ? ...
genome pathway metabolic rna-seq written 15 days ago by Wuschel • 170
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Comment: C: Python Help: Plots are not appearing in the Spyder Console
... Thanks, shoujun. I had a look. it doesn't work, unfortunately. ...
written 16 days ago by Wuschel • 170

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