User: ibasan

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ibasan40
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New User
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Last seen:
2 years ago
Joined:
2 years, 6 months ago
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i*****@gmx.de

Posts by ibasan

<prev • 13 results • page 1 of 2 • next >
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Level of selection
... Dear community, i performed codon based z-test for two genes to compare selective constraints between species groups ( purifying selection (dN < dS) as alternative hypotheses to the null hypotheses of strict neutrality (dN = dS)). Now i have Z statistic values which are slightly different betwe ...
purifying selection evolution z test written 2.1 years ago by ibasan40
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Comment: C: Gene ontology term comparisons between species
... Dear Jean-Karim Heriche, could you please be more detailed. I want to get the significant differences for each GO term for each comparison. A Chi-squared test will show if there are any differences but not for what GO term and species, isn't it? ...
written 2.4 years ago by ibasan40
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Gene ontology term comparisons between species
... Dear all, I did an orthology analysis for four species and annotated the orthogroups which are unique for one of the species or species groups. Now I want to compare the found GO terms to each other if there are any statistical differences between the species. Furthermore, I want to compare the resu ...
R gene ontology rna-seq statistics written 2.4 years ago by ibasan40 • updated 2.4 years ago by Jean-Karim Heriche20k
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Comment: C: Detect trees (newick) with specific topology
... Thanks for the link Juke-34. I will have alook at it! ...
written 2.5 years ago by ibasan40
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Comment: C: Detect trees (newick) with specific topology
... Dear jrj.healey, due to the fact that i'm not interested in keeping the branch lengths your idea is exactly what i need. Thanks a lot! ...
written 2.5 years ago by ibasan40
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Comment: C: Detect trees (newick) with specific topology
... Dear Khader Shameer, atm i don't have the images of the trees (but could get them). Thanks for your reply. ...
written 2.5 years ago by ibasan40
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Comment: C: Detect trees (newick) with specific topology
... Dear Jean-Karim Heriche, i will have a look at the R phylobase package. Thanks! ...
written 2.5 years ago by ibasan40
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Detect trees (newick) with specific topology
... Dear community, i have trees (<3000) in newick format with four species like this example: ((Spec4:0.529207,(Spec3:0.0803395,Spec2:0.0124315)),Spec1:0,Spec1:0); I am only interested to detect the trees in which two species are clustering together, like in the example Spec3 and Spec2. Is it ...
topology tree clustering compare written 2.5 years ago by ibasan40 • updated 2.5 years ago by Juke-342.6k
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Comment: C: Replace Sequence IDs in many text files (newick format) - Change script
... I tested it with 1000 files and it works! Thanks for helping me again! ...
written 2.5 years ago by ibasan40
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Comment: C: Replace Sequence IDs in many text files (newick format) - Change script
... Hi genomax2, atm sridhar56 script is running. I tried your version like this: !/usr/bin/perl for file in *.txt ; do perl script.pl tabfile.csv "${file}" > "${file%.*}"_modified.tree; done But this did not work. Can you please explain what i have to do? ...
written 2.5 years ago by ibasan40

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