| Name : R-ReDirection
| |
| Version : 1.0.1
| Vendor : obs://build_opensuse_org/devel:languages:R
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| Release : lp153.1.12
| Date : 2024-06-14 11:17:18
|
| Group : Development/Libraries/Other
| Source RPM : R-ReDirection-1.0.1-lp153.1.12.src.rpm
|
| Size : 0.03 MB
| |
| Packager : (none)
| |
| Summary : Predict Dominant Direction of Reactions of a Biochemical Network
|
Description :
Biologically relevant, yet mathematically sound constraints are used to
compute the propensity and thence infer the dominant direction of
reactions of a generic biochemical network. The reactions must be
unique and their number must exceed that of the reactants,i.e.,
reactions >= reactants + 2. \'ReDirection\', computes the null space of a
user-defined stoichiometry matrix. The spanning non-zero and unique
reaction vectors (RVs) are combinatorially summed to generate one or
more subspaces recursively. Every reaction is represented as a sequence
of identical components across all RVs of a particular subspace. The
terms are evaluated with (biologically relevant bounds, linear maps,
tests of convergence, descriptive statistics, vector norms) and the
terms are classified into forward-, reverse- and equivalent-subsets.
Since, these are mutually exclusive the probability of occurrence is
binary (all, 1; none, 0). The combined propensity of a reaction is the
p1-norm of the sub-propensities, i.e., sum of the products of the
probability and maximum numeric value of a subset (least upper bound,
greatest lower bound). This, if strictly positive is the probable rate
constant, is used to infer dominant direction and annotate a reaction
as \"Forward (f)\", \"Reverse (b)\" or \"Equivalent (e)\". The inherent
computational complexity (NP-hard) per iteration suggests that a
suitable value for the number of reactions is around 20. Three
functions comprise ReDirection. These are check_matrix() and
reaction_vector() which are internal, and calculate_reaction_vector()
which is external.
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RPM found in directory: /packages/linux-pbone/ftp5.gwdg.de/pub/opensuse/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Leap_15.3/x86_64 |
