User: agata88

gravatar for agata88
agata88800
Reputation:
800
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Location:
Poland
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http://bioidea.com.pl/en
Last seen:
7 months, 2 weeks ago
Joined:
5 years, 3 months ago
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Posts by agata88

<prev • 357 results • page 1 of 36 • next >
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How to download FASTA protein sequences for Escherichia coli strains from Ensembl?
... Hi all! I would like to download FASTA protein sequences from all Escherichia coli strains. At the Ensembl Bacteria page I see that I should download 2 681 files (https://bacteria.ensembl.org/info/website/ftp/index.html). I would like to do it in programmatically way and use Ensembl Rest API. Unf ...
ensembl sequence ensembl rest api bacteria written 8 months ago by agata88800 • updated 8 months ago by Ben_Ensembl1.6k
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Comment: C: Tools for detection of surface proteins in bacteria
... Thanks! I will try that tools. Best, Agata ...
written 8 months ago by agata88800
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Tools for detection of surface proteins in bacteria
... Hi all! Do you recommend any tool that can predict surface proteins in selected bacteria strain e.g. Escherichia coli? Many thanks for any suggestions, Best, Agata ...
bacteria proteins written 8 months ago by agata88800 • updated 8 months ago by kapsakcj60
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Comment: C: Multiple genome comparison for new genetic markers
... I know how to do it in multiple steps, I am wondering if there is a ready-to-go tool. Best, Agata ...
written 11 months ago by agata88800
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Comment: C: Multiple genome comparison for new genetic markers
... Well, I am not asking about simple SNP identification but about whole multiple genome comparison for marker identification. Sorry if I didn't make it clear. Best, Agata ...
written 11 months ago by agata88800
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Multiple genome comparison for new genetic markers
... Hi all! Do you know any tool that can compare multiple genomes and define differences between them (genetic variants) and cluster them according to close identity? Many thanks to any help, Best, Agata ...
markers written 11 months ago by agata88800
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Comment: C: Qiime2 - make table.gza
... Hi, I was, but somehow I missed it. Thanks a lot! Best, Agata ...
written 13 months ago by agata88800
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Qiime2 - make table.gza
... Hi all! I am new with Qiime2 and any kind of help would be much appreciated. I have abundance results for every taxonomy (phylum - genus) in Excell format. I would like to perform alpha and beta diversity with Qiime2. How can I convert data into table.gza file? Many thanks to any suggestions. ...
qiime2 written 13 months ago by agata88800
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Comment: C: plotTracks - empty plot and custom genomes
... I am also running R version 3.6.0 and Gviz 1.28.0, so I don't know why this is not working for me... For second question, thank you for tips! I will dig a little more. Best, Agata ...
written 14 months ago by agata88800
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plotTracks - empty plot and custom genomes
... Hi all! I am having trouble with Gvis library and plotTracks function. Here is my code: ideogram <- IdeogramTrack(chromosome = "chr4",genome="hg38") axis <- GenomeAxisTrack() plotTracks(list(ideogram, axis),from=189233986,to=189234447) Unfortunately, it is not plotting anything. ...
R gviz written 14 months ago by agata88800 • updated 14 months ago by benformatics2.0k

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