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Question: Error - Heatmap generation / visualization from RNA-seq data using DESeq2 workflow
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gravatar for skumar53
9 weeks ago by
skumar53 • 30
skumar53 • 30 wrote:

Hi

I wanted to try generating heatmaps of gene expression using normalized counts file obtained using DESeq2 / featureCounts on my transcriptomics data.

While trying to run it on the browser (I use Galaxy on web), I got the following error : This visualization requires the 'toolshed.g2.bx.psu.edu/repos/iuc/charts/charts/1.0.1' tool. Please make sure it is installed.

Can someone shed some light on this? I tried to find what this error meant, but in vain.

Thanks!
rna-seq heatmap deseq2 • 154 views
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modified 9 weeks ago by Jennifer Hillman Jackson ♦ 25k • written 9 weeks ago by skumar53 • 30
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gravatar for Jennifer Hillman Jackson
9 weeks ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Charts have been updated and moved to a new section of the GUI. Try using the Heatmap function under Visualize > Create visualization.

The public Galaxy server at https://usegalaxy.org is undergoing some updates over the next two weeks or so. Once done, I'll retest whether this is the option for Charts graphing (available per-dataset under the graph icon) is producing this type of error. If working at a different Galaxy server, you might want to contact the administrators to find out what the server/tool update status is.

Thanks! Jen, Galaxy team
ADD COMMENT • link written 9 weeks ago by Jennifer Hillman Jackson ♦ 25k
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