I'm coding a pipeline where I make a lot of pairwise alignments, and I end up with raw alignment scores. But, I really need to look at my results in terms of bit scores.
I know that the formula is:
$𝑆′ = (ƛ*𝑆 − 𝑙𝑛(𝐾)) / 𝑙𝑛(2)$
But, I don't know what
K would be. I'm currently using BLOSUM62.
I've looked around online for how to look up (and even empirically deduce) lambda and k, and I all I've come across were convoluted explanations.
I also know that this question from almost 3 years ago attempts to address the same topic, but the best response only leads to an NCBI link that requires login credentials.
Any help would be much appreciated.