Questions tagged [megax]
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5 questions
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Convert Symmetrix Matrix into Lower Triangular Matrix
I'm using Scipy's pdist function to calculate a distance matrix which is working great but it gives me a symmetric matrix and I want to convert it into a lower-left triangular matrix.
This is what it ...
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Converting .tsv to .meg for visualization
This is an add-on to the previous question I asked here.
I was able to deploy a "chunking" strategy to my kmer matrix and was able to get a file with the distance measurements! From what I ...
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MEGA11 gives the error "stop codons are found in the translated sequences", even though there are not!
I am using MEGA11 MEGA11: Molecular Evolutionary Genetics Analysis Version 11 , Mol. Biol. Evol. 38(7):3022–3027 to align protein coding sequences that I downloaded from KEGG database. I am ...
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MegaX Pairwise Matrix Error
I have a pairwise matrix that I've manually formatted into a ".mega" file following the guide in the MegaX documentation but when I go to import it into the application it gives this error:
<...
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Aligning sequences with multiple genetic codes!
I am doing a project on duplicated genes and I have a major difficulty on how to align sequences that use different genetic codes. I work with fasta files that contain sequences of protein coding ...
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