User: Iddo

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Iddo230
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http://iddo-friedberg.net
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Posts by Iddo

<prev • 19 results • page 1 of 2 • next >
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Job: Bioinformatics Postdoc Position, Friedberg lab, Iowa State University, USA
... The Friedberg lab at Iowa State University is one of the leading labs in the Critical Assessment of Function Annotation, or CAFA project. There is now an opening for a postdoctoral associate who will manage the Third CAFA experiment which will start Fall 2016. CAFA is a time-challenge to predict pro ...
protein function ontologies job python written 3.0 years ago by Iddo230 • updated 3.0 years ago by Istvan Albert ♦♦ 79k
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Comment: C: Drawing A Schematic Genomic Context Tree
... Nice. So how does this work for multiple genes / organism as in here? (Each arrow is a gene). http://imgur.com/iKolcBU ...
written 5.0 years ago by Iddo230
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Comment: C: Drawing A Schematic Genomic Context Tree
... Wow, looks nifty! What's an ACN? Also, how is the tree topology determined? ...
written 5.0 years ago by Iddo230
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Comment: C: Drawing A Schematic Genomic Context Tree
... Can't really see anything there. Anyhow, I thought iTOL only does trees. ...
written 5.0 years ago by Iddo230
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Comment: C: Drawing A Schematic Genomic Context Tree
... I can tailor my input to whatever's appropriate. If I were to write something like that (which seems like I would have to do), my input would be some sort of GFF file. ...
written 5.0 years ago by Iddo230
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Drawing A Schematic Genomic Context Tree
... Is there any software out there that can draw a simple, schematic rendering of a gene block across multiple species? The result should be something like: http://imgur.com/iKolcBU Plenty of such renderings in STRING, FIG and EcoCyc, to name those that I know. Anyone has a pointer to a standalone o ...
genome visualization evolution genomics written 5.0 years ago by Iddo230 • updated 5.0 years ago by Fabsta120
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Comment: C: Locating Citations
... After trying this in bulk, I see that Peter was right: although not necessarily directly overlapping with PMC, many pubmed articles do not have citations available. ...
written 5.2 years ago by Iddo230
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Comment: C: Locating Citations
... I should add that I found what seems to be a passable solution (see my answer below). Any comments would be helpful. ...
written 5.2 years ago by Iddo230
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Answer: A: Locating Citations
... So here is what I came up with, based on helpful comments here and from Twitter. Thanks especially to Peter Cock, Karin Verspoor and Nick Semenkovich. Apparently, things have progressed a bit at the NIH since the Biopython manual was written, and PubMed can be queried for PMIDs, and not only for P ...
written 5.2 years ago by Iddo230
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Comment: C: Locating Citations
... Thanks. should probably clarify that this is something I want to do high volume. That is, either with a web API or (even better) a citation database. ...
written 5.2 years ago by Iddo230

Latest awards to Iddo

Appreciated 5.0 years ago, created a post with more than 5 votes. For Kegg Paywalled, What Do People Use?
Good Question 5.0 years ago, asked a question that was upvoted at least 5 times. For Kegg Paywalled, What Do People Use?
Popular Question 5.0 years ago, created a question with more than 1,000 views. For Kegg Paywalled, What Do People Use?
Popular Question 5.0 years ago, created a question with more than 1,000 views. For Raw Bacterial Rna Sequence Db
Popular Question 5.0 years ago, created a question with more than 1,000 views. For Locating Citations
Popular Question 5.0 years ago, created a question with more than 1,000 views. For Diversity Analysis From 454 Data (No 16S Amplicons)
Popular Question 5.0 years ago, created a question with more than 1,000 views. For Drawing A Schematic Genomic Context Tree
Student 5.0 years ago, asked a question with at least 3 up-votes. For Kegg Paywalled, What Do People Use?
Student 5.0 years ago, asked a question with at least 3 up-votes. For Best Practice To Find Human Contamination In Microbiome?

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