Biopython Entrez Query Record of IDs doesn't Match the Query Search Results
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5.3 years ago
rlee03 • 0

does anyone know why the List of my IDs is only 20 while the Count from my results in my NCBI is 180000?

I was expecting a list of IDs equaling 82296360

Code is below

https://drive.google.com/file/d/0B-J0sIwOpVwANmtqTUZmMkNEdWc/view?usp=sharing

Thanks!

biopython entrez ncbi • 923 views
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Entering edit mode

I modified your post from "tutorial" to a question because that's what it is.
In addition, sharing code using a blind link is not advisable, because we don't know what is behind that link and I won't click just random google drive links on the internet. Use a github gist instead.

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5.3 years ago
theobroma22 ★ 1.2k

What is the length of your input sequences? If it's 25-mers or so you may want to include something like -task blastn-short in your command line, otherwise using blastx is a better option if you can opt to use this tool instead. Alternatively, try the ref2seq database too.

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