User: Iván

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Iván20
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1 year, 3 months ago
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7 years, 5 months ago
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Posts by Iván

<prev • 8 results • page 1 of 1 • next >
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Comment: C: Immunoglobulins in RNA-seq results
... Did you further explore this issue? I too am analyzing an RNA-seq dataset where I have many immunoglobulins differentially expressed and would like a direction to better delineate their roles. ...
written 16 months ago by Iván20
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Comment: C: Extract A Subrange Of Sequences From A Genbank File
... Any other ideas? ...
written 7.1 years ago by Iván20
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Answer: A: What Makes A Valid Gi List?
... I haven't used a gilist in BLAST, but maybe this link will be of help, although it's not for BLAST+ exactly. Check out specially the "Alias file structure" bit. Hope it helps! ...
written 7.1 years ago by Iván20
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Comment: C: Extract A Subrange Of Sequences From A Genbank File
... Thanks, but the sequence is not available at any other DB! ...
written 7.1 years ago by Iván20
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Extract A Subrange Of Sequences From A Genbank File
... Hi all, I think the title explains it all. I have a Genbank flat file (a whole genome) and I want to have a new Genbank file containing only a range of the original file. So, if my genome is 1..3500000 in size I just want the sequences from 10000..20000, while maintaning the original annotation (ge ...
extraction genbank written 7.1 years ago by Iván20 • updated 7.1 years ago by Pierre Lindenbaum116k
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Comment: C: How To Differentiate Databases When Blasting From The Command Line?
... Problem is I'm using BioPython to parse my .xml output, so I'm not sure I'll be able to extract this info from the new blast+ output! In all cases I'll read more into it, thanks! ...
written 7.4 years ago by Iván20
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Comment: C: How To Differentiate Databases When Blasting From The Command Line?
... Hmm, easy indeed! I hadn't thought of sed'ing everything in one go. If no one else has a way of directly extracting the db id hit from the blast output I will mark your answer as the accepted. Thank you :) ...
written 7.4 years ago by Iván20
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How To Differentiate Databases When Blasting From The Command Line?
... Hello, I'm creating a python script to take each ORF from a genome and blasting it against 3 other genomes in order to retrieve common and unique ORFs for the query genome. I am using Bio.NCBIXML to parse the blast results and am runnning the blast command using os.system as following: blastall -p ...
xml parsing blast python written 7.4 years ago by Iván20 • updated 7.4 years ago by ALchEmiXt1.9k

Latest awards to Iván

Popular Question 6.9 years ago, created a question with more than 1,000 views. For How To Differentiate Databases When Blasting From The Command Line?
Popular Question 6.9 years ago, created a question with more than 1,000 views. For Extract A Subrange Of Sequences From A Genbank File

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