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Updated the bandage section.
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joannmudge committed Jan 10, 2025
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39 changes: 36 additions & 3 deletions module_notebooks/07-visualization.ipynb
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"\n",
"#### Bandage\n",
"\n",
"![Bandage: https://rrwick.github.io/Bandage/](./Figures/Bandage.png){width=100%}\n",
"Bandage is an interactive graph visualizer. The Bandage acronym stands for:\n",
"a **B**ioinformatics **A**pplication for **N**avigating **D**e novo **A**ssembly **G**raphs **E**asily\n",
"\n",
"![Bandage: https://rrwick.github.io/Bandage/](./Figures/Bandage.png)\n",
"\n",
"In addition to visualizing graphs, Bandage has BLAST integration that allows you to query the graph with DNA sequences.\n",
"\n",
"+ BLAST integration\n",
" + Can build a local BLAST database of the graph\n",
" + Can do a web BLAST search with sequences from nodes\n",
"2. More details on making CSV labels: https://github.com/rrwick/Bandage/wiki/CSV-labels\n",
"\n",
"Bandage also allows you to label and color nodes by uploading comma separated value (CSV) text files with metadata.\n",
"\n",
"Details on creating CSV files can be found [here:](https://github.com/rrwick/Bandage/wiki/CSV-labels).\n",
"\n",
"\n",
"##### **Group exercise:**{-}\n",
"\n",
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