Questions tagged [distance-matrix]
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4 questions
5
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How can I compute distance matrices from a PDB file?
I want to compute the distance matrix from PDB files.
So, I wrote the following Python code using BioPython.
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3
votes
1
answer
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Process gets killed before completing
I have a large tsv file (~15 GB) that is a kmer count matrix and I am trying to calculate jaccard distance of the counts but every time I try to run the following code the process ends before it's ...
- 1,063
3
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2
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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 ...
- 1,063
1
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1
answer
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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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