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For each sequence, we computed the base pairing probability matrices P using RNAfold, for all three possible substitutions at position 200.
For each sequence, we computed the time and the cumulative travel distance of the animal at the center of the sequence.
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For each sequence, we computed secondary structure and solvent accessibility data using, respectively, PSIPRED [44] and ACCpro [45].
Additionally, for each subject and sequence, we compute the Mutual Information (MI) between feedback and outcome.
For the (1) full consensus sequences, we computed the consensus residue at each sequence position, and for the (2) partial consensus, we computed the consensus in a constrained way, e.g. only for the more informative positions.
To predict the phylogenetic coverage of ancestral sequences, we computed for each ancestral sequence, the number of extant sequences that diverged from it by <5%.
To this end, we computed the mean Shannon-Entropy for each sequence position over all according sequences.
Next, we compute the sequence ({y_{n}}).
We compute the Hamming distance between sequences.
For every linear single-strand genome sequence, we can compute its (n+4 -dimensional n+4 -dimensional
For every linear single-strand genome sequence, we can compute its n-dimensional moment vector.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com