A single prediction of signalHsmm
.
A stochastic model of signal peptide produced by signalHsmm
.
Always a named list of five elements
sp_probability
is a probability of signal peptide presence.
sp_start
is a start of potential signal peptide (naively 1 aminoacid).
sp_end
is a position of last amino acid of signal peptide.
struc
is numeric vector representing predicted structure of input
protein.
prot
is character vector containing input sequence of amino acids.
str_approx
has value bigger than 0 if the predicted signal peptide
structure was approximated (usually in case of sequences that have no signal peptides).
Always a named list of five elements
aa_group
encoding of amino acids. See aaaggregation
for an example.
pipar
probabilities of initial state in Markov Model.
tpmpar
matrix of transition probabilities between states.
od
matrix of response probabilities. Eg. od[1,2] is a probability
of signal 2 in state 1.
overall_probs_log
probabilities of amino acids in mature protein.
params
matrix of probability distribution for duration. Eg. params[10,2]
is probability of duration of time 10 in state 2.
summary.hsmm_pred
plot.hsmm_pred
train_hsmm
predict.sighsmm_model
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