User: etiennewalex

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etiennewalex30
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2 years, 7 months ago
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Posts by etiennewalex

<prev • 14 results • page 1 of 2 • next >
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Comment: C: Keep only the best match after Megablast
... Thank you Jen, Actually, I thought that it was possible, with Select tool, to write something like: for identical names in Column 1 (column with sequence ID), keep only the line with the max number in column 2 (column with %identities). But I don't know how would be the syntax for this. Is this fea ...
written 2.5 years ago by etiennewalex30
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Keep only the best match after Megablast
... Dear all, Is there a way, after Megablast, to filter for each read the best match? In my case, I ran a Megablast and asked the tool to report identies above 97%. So, for each read, I got a big number of alignments, with a list of all sequences deposited in Genbank with 97 to 100% identity with th ...
megablast written 2.5 years ago by etiennewalex30 • updated 2.5 years ago by Jennifer Hillman Jackson25k
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Comment: C: Organism names after Megablast?
... OK thanks for your help! ...
written 2.5 years ago by etiennewalex30
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Comment: C: Organism names after Megablast?
... Thanks, Is there another way to automatically get organism names of all my megablast file without these tools? ...
written 2.6 years ago by etiennewalex30
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Comment: C: Organism names after Megablast?
... Dear Jen, Are this tools available now? If yes, where? I still want to retrieve organism names of my Megablast file. Best etienne ...
written 2.6 years ago by etiennewalex30
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Comment: C: Organism names after Megablast?
... Thank you very much for your help. Best, etienne ...
written 2.6 years ago by etiennewalex30
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Comment: C: Organism names after Megablast?
... Thank you Jen, I will wait for the restoration of Fetch taxonomic groups. How can I know when it is restored? Do you think it will last a long time? Thanks ! ...
written 2.6 years ago by etiennewalex30
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(Closed) Is there a way to fetch taxonomic information for a list of GI numbers in Galaxy?
... Hello, I performed a MEGABLAST analysis a few days ago, but I am now unable to automatically retrieve organism names. The Megablast output file contains GI numbers, but no name of the organisms. I have now been trying to automatically get the names of the organisms identified with the Megablast for ...
galaxy written 2.6 years ago by etiennewalex30
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Comment: C: Organism names after Megablast?
... Thanks Jen, I tried to use Kraken but I couldn't because no option is available to select database. I am still with the results of my MEGABLAST with the different GIs, but I am unable to automatically translate these GIs to organism names. Somebody told me to use testgalaxyproject.org and I found ...
written 2.6 years ago by etiennewalex30
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Comment: C: Can I turn off my computer during Megablast In Galaxy?
... Dear Jen, MEGABAST executed well. However, now I can't find how I can retrieve organism names as Megablast gives me only GI numbers. 2 months ago I was said to use Fetch taxonomic reprentation tool during a Workshop on metagenomic analyzes, but I can't find this tool now. What is the way do do this ...
written 2.6 years ago by etiennewalex30

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