Mercurial > repos > fubar > plotly_blast_plot
diff plotly_blast_tool/README.md @ 3:82bcfcb60f97 draft default tip
Updated by re-generating with latest ToolFactory so png or html outputs can be requested. Output labels are informative too.
author | fubar |
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date | Fri, 04 Aug 2023 01:55:07 +0000 |
parents | 61cc57e069c0 |
children |
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--- a/plotly_blast_tool/README.md Wed Jul 26 12:16:56 2023 +0000 +++ b/plotly_blast_tool/README.md Fri Aug 04 01:55:07 2023 +0000 @@ -1,3 +1,25 @@ # plotly_blast_tool -Galaxy tool to plot user selected columns from a 25 column Galaxy blastn search output using plotly.express +## Install to your Galaxy server from the toolshed - search for plotly_blast_tool owned by fubar2 + +### Example interactive plots and more at https://lazarus.name/demo/ + +#### Non interactive screen grab of the tool output +![Plotly tabular non-interactive screengrab](pbsample.png) + +Specialised version of the generalised ![plotly_tabular_tool](https://github.com/fubar2/plotly_tabular_tool), but designed +for 25 column Galaxy blastn search outputs. + +It uses the same code, but adds a default header and auto-transformation of the evalue column -log10(x) to make them more like the bitscore + +Plotly.express makes a lot of clever design decisions. +Unfortunately, it gets totally confused with very small floats in scientific notation. Treats columns with 5.00e-204 as strings or something, so +strange and probably uninformative axes and plots will probably result if you try a blast evalue column without transformation. +Note that all columns used for colour (legend) and the x/y axis tickmarks are truncated because they can squish up the plot. +*..* is appended at the truncation. + +## Tool made with the Galaxy ToolFactory: https://github.com/fubar2/galaxy_tf_overlay +The current release includes this and a generic tabular version, plus a java .jar wrapper, in an "advanced example" history +where they can be rerun and changed. They are also generated by an "advanced expample workflow" +where they can be regenerated if the input data sets are available. +