User: ivan.antonov

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ivan.antonov50
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Location:
Moscow, Russia
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Last seen:
21 hours ago
Joined:
5 years ago
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Posts by ivan.antonov

<prev • 15 results • page 1 of 2 • next >
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Answer: A: Count the number of sequences in fasta file using perl
... You can do many things in UNIX command line using Perl and "wc". Counting the number of sequences: grep '>' INPUT.fasta | wc -l --- Counting the total length of all sequences: grep -v '>' INPUT.fasta | perl -pe 's/[\n\r]//g' | wc -c --- List of all sequence lengths: cat INPU ...
written 6 days ago by ivan.antonov50
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Comment: C: How to visualize gene structure of a (prokaryotic) locus?
... This is just perfect -- thanks a lot! ...
written 7 days ago by ivan.antonov50
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Comment: C: How to visualize gene structure of a (prokaryotic) locus?
... Thanks -- DNAFeaturesViewer and GenomeDiagrams python libs look like what I need:) ...
written 9 days ago by ivan.antonov50
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Comment: C: How to visualize gene structure of a (prokaryotic) locus?
... Thanks for the link! ...
written 9 days ago by ivan.antonov50
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Comment: C: How to visualize gene structure of a (prokaryotic) locus?
... Yeah, something like GFF format. I can prepare a list of genomic coordinates for the genes of interest in any format... ...
written 9 days ago by ivan.antonov50
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Comment: C: How to visualize gene structure of a (prokaryotic) locus?
... Thanks for the response! It may be difficult to accurately visualize the gene lengths and intergenenic distances by hand, though.. ...
written 9 days ago by ivan.antonov50
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How to visualize gene structure of a (prokaryotic) locus?
... Hello, guys! I was wondering, how an image like this can be automatically (programmatically) generated from the initial data in a text file? ![enter image description here][1] The figure is taken from https://www.ncbi.nlm.nih.gov/pubmed/29168502 Could anyone recommend a good R package for this? ...
genome R visualisation gene python written 9 days ago by ivan.antonov50 • updated 7 days ago by h.mon19k
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Comment: C: How to draw a phylogenetic tree together with a genome locus structure?
... Yes, Brice -- nice note about the font! Thank you once again for the answer:) Ivan ...
written 23 months ago by ivan.antonov50
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How to draw a phylogenetic tree together with a genome locus structure?
... Hello, I am wondering, what tool/R-package can be used to draw this type of tree (preferably, programmatically)? ![enter image description here][1] The image is taken from: https://www.ncbi.nlm.nih.gov/pubmed/26773003 [1]: http://ivanya.com/tmp/2016/1024.tree.png ...
draw tree tool written 23 months ago by ivan.antonov50 • updated 22 months ago by Guangchuang Yu1.9k
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Comment: C: What tools were used to draw these phylogenetic trees?
... Ah, Ok! Thank you -- I didn't realize that :) ...
written 23 months ago by ivan.antonov50

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Popular Question 23 months ago, created a question with more than 1,000 views. For How to draw a phylogenetic tree together with a genome locus structure?
Popular Question 23 months ago, created a question with more than 1,000 views. For What tools were used to draw these phylogenetic trees?

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