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We consider the perturbed vector optimization problem of form begin{aligned} (operatorname{VOP}_{lambda, mu} quad C-min f x, lambda) mbox{ subject to } xin Phi(mu), end{aligned} (2.1) depending on the parameters (lambdainLambda) and (muin M), and (f:XtimesLambdarightarrow Y) is a vector-valued mapping and (Phi: Mrightarrow2^{X}) is a set-valued mapping with nonempty values.
It depends on the parameters.
lncRNAs (query) were aligned on mRNA (database) with the parameters –Q0 –and –m100 –s0 –b8, and the –e parameter was evaluated using the lastex tool for each alignment103.
For more information on the parameter system see "ahelp parameter".
unix% mkrmf infile=")acis_fef_lookup.outfile"...other parameters.. See "ahelp parameter" for more on the parameter interface.
OT-2001 and OT-2009 reand were aligned on the readsence genome were BWaligneddefault parameters [ 34].
The bear ESTs were masked by RepeatMasker (-species mammal -norna) and then aligned on the dog genome by BLASTN with default parameters.
This method is based on unsupervised training of the parameters and subsequent construction of a new HMM by aligning and merging Viterbi decoded sequences.
Processed reads were aligned in Bowtie 1.0 according to the parameters: –v 3 –m 10 –best –strata.
In a first step, the Illumina reads were aligned on the MinION® templates using BLAT [ 23] with the following parameters: tileSize = 10 and stepSize = 5.
Nucleotide coding sequences were aligned on the basis of their translated amino acid sequences using the BioEdit and CLUSTAL_X programs with the default parameters [ 52, 53].
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