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BLAST_​The_​Tree

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BLAST from the PAST

This example shows how to run the BLAST RESTful interfaces to submit BLAST searches inside of KNIME Analytics Platform. BLAST (Basic Local Alignment Search Tool) is a fast and robust algorithm that finds regions of similarity between biological sequences. In this example we use BLAST inside KNIME Analytics Platform to compare DNA extracted from a bone with a database of DNA sequences and find out which organism the bone belongs to.

URL: Blast from the Past https://www.knime.com/blog/blast-from-the-past

Carry out BLAST, from given sequence and given parameter of Blast Input sequenec of interest and parameters ofsearch Selec the method to do aligment andconstruct phylogenetic three Mafft software of aligments get samples nucleotide sequecein fasta format and write in .faa fileNode 15make alignment by Clustalw2Construct phylogenetic treeConstruct phylogenetic treeNode 19Node 23sequence outmaking BLAST query and getting resultstransforming results into XML for further useNode 98Node 99make alignment by Muscleget samples nucleotide sequecein fasta format and write in .faa fileNode 102Phylogenetic treeconstruction Phylogenetic treeconstruction Construct phylogenetic treeget samples nucleotide sequecein fasta format and write in .faa fileNode 110 Python Script(legacy) Combine Python Script(legacy) Python Script(legacy) Python Script(legacy) Python Script(legacy) Single SelectionWidget Column Filter Extract BLASTresult fields Python Script(legacy) String To XML Show BLAST Results Sequance input Control panel List Box Input(legacy) Data filtration Python Script(legacy) Python Script(legacy) Switch Python Script(legacy) Python Script(legacy) Python Script(legacy) Python Script(legacy) Run externalexecution Carry out BLAST, from given sequence and given parameter of Blast Input sequenec of interest and parameters ofsearch Selec the method to do aligment andconstruct phylogenetic three Mafft software of aligments get samples nucleotide sequecein fasta format and write in .faa fileNode 15make alignment by Clustalw2Construct phylogenetic treeConstruct phylogenetic treeNode 19Node 23sequence outmaking BLAST query and getting resultstransforming results into XML for further useNode 98Node 99make alignment by Muscleget samples nucleotide sequecein fasta format and write in .faa fileNode 102Phylogenetic treeconstruction Phylogenetic treeconstruction Construct phylogenetic treeget samples nucleotide sequecein fasta format and write in .faa fileNode 110Python Script(legacy) Combine Python Script(legacy) Python Script(legacy) Python Script(legacy) Python Script(legacy) Single SelectionWidget Column Filter Extract BLASTresult fields Python Script(legacy) String To XML Show BLAST Results Sequance input Control panel List Box Input(legacy) Data filtration Python Script(legacy) Python Script(legacy) Switch Python Script(legacy) Python Script(legacy) Python Script(legacy) Python Script(legacy) Run externalexecution

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To use this workflow in KNIME, download it from the below URL and open it in KNIME:

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Created by: Oleg Yasnev
Created at: 2017-10-06
On NodePit since: 2023-09-27
Last update: 2024-05-01
Created with KNIME version: v5.1.0
Tags: bioinformaticsDNA sequence comparisonasynchronous REST operationsBLAST RESTful interfacesbiologyDNA

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