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Look for similar DNA sequences to a given sequence in the NCBI database
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2.3 years ago
erans995 • 0

Hi everybody!

For a project, I'm trying to look for similar DNA sequences to a given sequence in the NCBI database, not necessarily from the same species, for example: given a DNA sequence found in a cat, I want to look for a similar one in different reptiles.

Thanks in advance.

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Thank you very much for your quick reply, but I need to do it in JAVA code. I couldn't find any way to run blast search in JAVA, any ideas?

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I need to do it in JAVA code

yes, I'm sorry, that was clearly specified in your question....

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Have any idea though?

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in Java

Why Java specifically? Is this an assignment?

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Yes, this is an assignment. If you have any other idea in another language, it's also okay. cpp preferably :>

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Are you and erans995 the same person?

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We are partners to this assignment

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Pierre has given you the lead to the solution, try implementing it yourself and come back to us if you have specific questions.

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Hey there. We've been looking all over the internet, and couldn't find a way to run a blast search in a java program. Also, we tried to access through the url, but there is no way to achieve the search results..

We are really frustrated and in need of help. All we really need is a program to run a blastn search in java.

Thanks ahead.

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You said CPP is OK too. Did you look for a way to run blast in CPP? It'd be a little difficult to believe that BLAST doesn't have APIs in two mainstream languages.

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Found nothing, tried everywhere,that's why we're asking here. If there is something you guys know, please leave a link here.

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REST API and C++ toolkit discovered after literally 5 minutes of Google: https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastDocs&DOC_TYPE=DeveloperInfo ¯\_(ツ)_/¯



image

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It's a group assignment,we're partners. If you help him, you help me!

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16 months ago
France/Nantes/Institut du Thorax - INSE…

use blastn https://blast.ncbi.nlm.nih.gov/Blast.cgi?PROGRAM=blastn&PAGE_TYPE=BlastSearch&LINK_LOC=blasthome with

Organism : Reptilia (taxid:8504)
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