User: lagartija

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lagartija90
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Posts by lagartija

<prev • 86 results • page 1 of 9 • next >
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Comment: C: How to remove illumina universal adapter
... Have you checked that the adapter sequence given by fastqc is the same sequence that is in TruSeq3-PE.fa ? ...
written 17 days ago by lagartija90
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Comment: C: How to calculate dN/dS for all ortholog group ?
... I use codeml on neutral model but it is really non trivial ...
written 17 days ago by lagartija90
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cytoscape : edge weighted layout
... Hi, I am working on a cytoscape network with an "edge-weighted" layout (very important, because everything is connected). Still I never manage to understand if the column I give as the edge weight value should be a distance or a similarity. The network looks quite similar whether I interpret my e ...
cytoscape written 18 days ago by lagartija90 • updated 16 days ago by scooter420
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Translate evolutionary model for MrBayes
... Hi, I wonder if there is any file that summarizes how to enter any type of model in MrBayes. I got from here : https://www.biostars.org/p/79305/ how to translate +I, +G and +F but not the actual model. For example, how do I translate PMB+F+R6 or Blosum62+F+R6 Thank you ! ...
phylogeny written 5 weeks ago by lagartija90 • updated 12 days ago by Biostar ♦♦ 20
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Comment: C: devtools Installation error in R (version 3.5.3)?
... Found a way : apt install libgit2-dev install.packages("gert") then "usethis" then "devtools" ...
written 10 weeks ago by lagartija90
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Metagenomics - Functional analysis
... Hi, I ran my metagenomes through several tools (IPscan, EggNOG...) and now I wish to integrate and visualize my data for functional annotation and viewing pathways through KEGG for example. Do you know a tool for that ? MEGAN seems good but I don't know if I don't manage to use it just to visualiz ...
metagenomics megan written 3 months ago by lagartija90
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Comment: C: optimal number of clusters from distance matrix input
... Thank you, I think I agree. I only have a distance matrix because I am comparing images pairwise and the first step is to output a distance. ...
written 4 months ago by lagartija90
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Comment: C: Problem renaming headers in multi fasta file using certain scripts
... So you have you new headers in a file or you just want your headers to be like ASV1, ASV2... ? ...
written 4 months ago by lagartija90
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Comment: C: Error when running Metabat 2
... Please send us your command. This worked for me : `jgi_summarize_bam_contig_depths --outputDepth output_depth_jgi.txt input.bam` ...
written 4 months ago by lagartija90
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Comment: C: How to use sed command on multiple files
... sorry : `for i in *.faa ; do sed '/^>/ s/ .*//' $i > result/$i ; done` ...
written 4 months ago by lagartija90

Latest awards to lagartija

Supporter 3 months ago, voted at least 25 times.
Popular Question 4 months ago, created a question with more than 1,000 views. For How to annotate nodes in Cytoscape

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