User: Fabsta

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Fabsta120
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4 years, 12 months ago
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8 years, 3 months ago
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Posts by Fabsta

<prev • 7 results • page 1 of 1 • next >
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Answer: A: Drawing A Schematic Genomic Context Tree
... We have a reusable JavaScript tree plugin in the BioJS project. https://www.ebi.ac.uk/Tools/biojs/registry/Biojs.Tree.html It uses D3 and a JSON file. ...
written 5.0 years ago by Fabsta120
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Suitable Database Management System For Storing/Querying Phylogenetic Trees
... Hi guys, I am interested in alternative ways of storing phylogenetic trees in a database. Currently, we represent trees as nested sets in a MySQL database. The trees are gene trees of animal species (~16,000) and give homology(orthology/parology) information for each gene. Since homology is a pair ...
database tree graph written 6.2 years ago by Fabsta120 • updated 6.2 years ago by lh331k
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Comment: C: Newick 2 Json Converter (Preferably In Perl)
... Thanks a lot, asjo, for the quick and elegant answer. The output format is exactly what I need. ...
written 6.7 years ago by Fabsta120
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Comment: C: Newick 2 Json Converter (Preferably In Perl)
... Yes, I updated the post. Looking forward to a solution :-) ...
written 6.7 years ago by Fabsta120
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Newick 2 Json Converter (Preferably In Perl)
... Hi! Does anyone know a Perl snippet that converts a tree in newick format into a JSON string? I had a look at Bio::Phylo, but could not really find a solution. Any help is much appreciated. An example newick string could be (sorry for the length): (Capsaspora_owczarzaki,(Proterospongia,Monosi ...
perl written 6.7 years ago by Fabsta120 • updated 6.7 years ago by Damian Kao15k
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Correct Terminology: Predicted Orthologs Vs Inferred Orthologs Vs Assigned Orthologs
... Hello! My question regards the correct terminology when talking about orthologous genes. Assuming all of the following expressions are more or less correct, I was wondering, which one might be the most accurate? List predicted orthology relationship List inferred orthology relationship List assign ...
orthologues written 7.3 years ago by Fabsta120 • updated 7.3 years ago by Javier Herrero290
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Convert Blast Output Into Blast-Xml
... Hey! Problem: I need to convert a standard Blast report into the blastxml format. Background: For speed reasons, I am using UBlast (Usearch) instead of NCBI-Blast. UBlast outputs either tab-delimited format compatible to the -m8 option of NCBI's Blast or a human-readable Blast report. Does anyone ...
xml blast conversion written 7.9 years ago by Fabsta120 • updated 7.9 years ago by Pedrofeijao20

Latest awards to Fabsta

Appreciated 6.2 years ago, created a post with more than 5 votes. For Suitable Database Management System For Storing/Querying Phylogenetic Trees
Good Question 6.2 years ago, asked a question that was upvoted at least 5 times. For Suitable Database Management System For Storing/Querying Phylogenetic Trees
Student 6.2 years ago, asked a question with at least 3 up-votes. For Suitable Database Management System For Storing/Querying Phylogenetic Trees
Popular Question 7.9 years ago, created a question with more than 1,000 views. For Convert Blast Output Into Blast-Xml

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