Ask Help For All To All Blastp
I am trying to identify the orthologous CDS groups between different e.coli genomes. One of the ways described in a paper is that using all to all blastp to analyze all CDSs of different genomes. Anyone know how to do all to all blastp? Thanks!
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juwenting •
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juwenting •
1 answer
check this paper http://bioinformatics.oxfordjournals.org/content/24/3/319.abstract
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Do you know how many gigabytes each side of that all to all matrix will be? say 10^2 alignments times 10^5 sequences times 10^5 sequences. Minus half if and only if the matrix is symmetric.