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screenshot from LibreOffice
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I would expect the snippet below to print more alignments, that have residue pairs ('Q', 'N') and ('N', 'E') prepended to the aligned region (see output from my own implementation). BLOSUM62 scores fo…
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Hey!
I've got the following issue:
When I substitute a value into my existing (matrix) equation I get a completely different (and wrong!) result when evaluating before substituting.
It seems if…
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Prove Cramer's Rule (Metamath 100 #97). 4 other formalization tools have done so.
Mario says: Needs Determinants, and matrix algebra more generally. Stefan has made some great strides in this dir…
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Substitution and targeting models for motifs are [implemented in the shazam R package](https://cran.r-project.org/web/packages/shazam/vignettes/Targeting-Vignette.pdf). Our idea is to infer substituti…
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Hi, I'm performing a diamond blast run.
Everything is working very well but I cannot find all the hits I find with blast+.
I have a fasta file composed with 110 protein sequences, then I made a …
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## Expected Behavior
Search 13311 queries against database of 17M sequences
## Current Behavior
Fails in alignment step:
## Steps to Reproduce (for bugs)
mmseqs search tcdb_query.nr.db /data…
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David and I just created trees based on Duncan's analysis of the sequences I gained recently. It would be really great if there was a way to reconstruct the sequences at internal nodes of the trees. …
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As mentioned [here](https://github.com/soedinglab/MMseqs2/issues/157) I tried to index a 108GB fasta file with 188M sequences (NCBI's nr) in a server with 188GB memory.
> mmseqs createdb nr.fa nr.D…
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The LU factorization (through UMFpack) currently implemented in julia 0.5 is rather slow when using it for multiple right hand sides. Looking at umfpack.jl lines 259 you can see that there is a loop o…