Category Archives: HOWTO

Indexing sequence files with Biopython

The forthcoming release of Biopython 1.52 will include a couple of nice improvements to the Bio.SeqIO module, and here we’re going to introduce the new index function. Continue reading

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Clever tricks with NCBI Entrez EInfo (& Biopython)

Constructing complicated Entrez searches can be tricky, but it turns out one of the Entrez Programming Utilities called Entrez EInfo can help. This can tell you all the searchable fields available for each of the Entrez databases. Continue reading

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Introducing (and expanding) the Biopython Cookbook

Hi all, You may have noticed we’re trying out using the wiki for Biopython cookbook entries. It’s a new idea so at the moment there are only a few ‘recipes’ on offer. If you have some tricks you find yourself … Continue reading

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HOWTO automate tree drawing

I updated the Trees HowTo with some code demonstrating how to automatically generate postscript trees from newick or nexus tree files. This uses the Bio::Tree::Draw::Cladogram module that will draw Phylograms or Cladograms. With a few unix tools (eps2png and epstopdf … Continue reading

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