User: Darill

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Darill30
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1 month, 1 week ago
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1 year, 3 months ago
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b****************@gmail.com

Posts by Darill

<prev • 93 results • page 1 of 10 • next >
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Comment: C: Count number of monophyletic groups within pylogeny
... Thank you ! it works like a charme :) ...
written 12 weeks ago by Darill30
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Count number of monophyletic groups within pylogeny
... Hello, I wondered if it whas possible within a newick tree to count the number of monophyletic groups even if intruders are splitting this group. Here is an exemple Let say you have the following three : `((A,A),((B,B),((A,A),A))));` here in that case `A` are species belonging to the `Genus A` fo ...
phylogeny monophyletic written 3 months ago by Darill30 • updated 12 weeks ago by jrj.healey13k
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What kind of protein matrix substitution use for blastX divergent sequences
... I'm actually trying to find some homology between sequences inside a genome and several viral proteins in a database. As you all know, virus evolve very quickly, so I'm expecting to find a lot a divergences between the sequences I compared. In the literature I see that BLOSUM < 62 are used for ...
matrix homology diamond blast written 5 months ago by Darill30
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Comment: C: output path issue on Busco (python)
... Yep it works if I modify it directly in the config.ini file of course but the output path will change depending on the script I use... I have around 100 script to run with a unique path for each job, that is why I want to incorporate the out_path directly in my script and not in the config.ini whi ...
written 6 months ago by Darill30
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Comment: C: output path issue on Busco (python)
... Yes I removed the ; part but there is still the same issue. ...
written 6 months ago by Darill30
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Comment: A: Recover fasta sequences in database from the blast output 6
... Hi everyone, I have some news concerning the idea you proposed me. The issue is in term on time because if I write a command line for each hit blast, it is about `310 000` commande lines to execute in order to recover the fasta sequences in the database corresponding to the range start and end. So ...
written 6 months ago by Darill30
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Comment: C: Recover fasta sequences in database from the blast output 6
... I get error messages such as: IDBA_scaffold_10046632436: 1: IDBA_scaffold_10046632436: Syntax error: Unterminated quoted string IDBA_scaffold_2263239172667: 1: IDBA_scaffold_2263239172667: Syntax error: Unterminated quoted string IDBA_scaffold_2469820637: 1: IDBA_scaffold_2469820637: S ...
written 6 months ago by Darill30
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Comment: C: Recover fasta sequences in database from the blast output 6
... I'm not sure to understand what you mean by `duplicate`, here is an exemple of the blast output : YP_006347591.1 IDBA_scaffold_19039 30.319 188 119 6 1772 1953 1083 1628 8.97e-24 80.5 YP_006347591.1 IDBA_scaffold_19039 37.500 88 54 1 1652 1738 712 975 8.97e-24 54.7 YP_006347732.1 IDBA_scaf ...
written 6 months ago by Darill30
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Comment: C: Recover fasta sequences in database from the blast output 6
... Ok but if in the -entry there is only the ID, where is the file `blast_lh_all_new.out` where are available the coordinates "end and start" ...
written 6 months ago by Darill30
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Comment: C: Recover fasta sequences in database from the blast output 6
... Hi, thanks for your answer. Since the ID of my database are in the column 2 should I not cut the column 2 instead and do : awk '{print $2 $9 $10}' blast_lh_all.out > blast_lh_all_new.out With in the blast_lh_all_new.out in the column 1 the ID of the hit blast in my database and une the 2 ...
written 6 months ago by Darill30

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Centurion 5 weeks ago, created 100 posts.
Epic Question 6 weeks ago, created a question with more than 10,000 views. For C extension: No module named 'pandas._libs.tslib' not built (pandas)
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