... Distances between sequences . It is considered that the space, where all amino acids and sequences are analysed, is a metric one. ... When the distance between amino acids is entered, it is rather easy to consider such measure as pair distance between sequences in any position of alignment (in fact, this distance is just a distance between two amino acids). As distance is an additional quantity, pair distance between sequences on all alignment positions can be easily defined. ...

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• About authors ot this complex
• About this project

... Algorithm & . Format requirements . ... SDPsite is a tool for identification of protein active and other functional sites, based on spatial clustering of SDPs (specificity-determining positions, described here ) with CPs (conserved positions). ... Mapping predictied positions onto structure and construction of the best cluster . ... The input data of the algorithm are a multiple protein alignment divided into specificity groups . ... is called statistical significance of the set of k* positions . ...

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• SDPlight
• Input Formats

... annotate . ... broken: lib::block::geometrical_cores returns list of blocks added new parameters to geometrical_core test passed . ... BurkovBA@0 . ... 5 import project . ... bnagaev@129 . ... 15 * self.project -- project object, which the block belongs to . ... 18 * self.positions -- sorted list of positions of the project.alignment that . ... bnagaev@112 . 28 def __init__ ( self , project , sequences = None , positions = None ): . ... 37 positions = range ( len ( project )) . ... 38 self . ...

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• allpy: a6d287f9c901 lib/block.py
• allpy: e4b269ba4f5f lib/project.py
• allpy: 5091fef2ad88 lib/project.py

Geometrical core (core) is a maximal set of alignment positions such that C atoms in these positions are disposed similarly in ALL input protein chains. ... Minimal core size (#aa's) . ... Alternative core new atoms (%) . ... Geometrical core is a maximal set of alignment positions such that C atoms in these positions are disposed similarly in ALL input protein chain. ... Each input sequences is aligned to the corresponding sequence obtained from the ATOM section of the protein chain in the PDB file. ...

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Evalign . Evalign is a computerised evaluation method for protein sequence alignment algorithm. It compares computer alignments with structural alignments of protein sequences and tells how correct your sequence alignment program is. It gives additional information on the characteristics of different alignment algorithms and shows types specific failings in alignment. ... None . ... SAL Home | Other Scientific Fields | Chemistry, Biology Related . ... SAL@KachinaTech.COM . ...

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Next: Other parameters of the Up: The Model Previous: Initial binary parameters . As we only deal with initially massive binary systems (their primary's mass is higher than 10 ), which are capable of evolving off the main sequence during less than years, the compact stars left behind stellar evolution are (in the case of the most massive stars) NSs and BHs. ... For a NS belonging to a binary, the evolution complicates as the secondary star evolves: for example, (recycling), etc. ...

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• Calculation of Evolutionary Tracks
• Parameters of binary compact star evolution
• Other parameters of the evolutionary scenario

... Instructions are in README.TXT file inside the tarball. ... tar -xvf nhunt_x86.tar Query and database files should contain sequences in FASTA format ( wikipedia description ). ... Default name of the output file is 'nhunt.out'. ... Any parameter consists of key and value and is called as '-key value', where 'key' is one character and 'value' is any number of characters. -i Query file . ... No default value. -d Database file . ... No default value. -o Output file . ... Default value: 'nhunt.out' . ...

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• ConClus

... Values: 0 (Uncorrected); 1 (Jukes-Cantor); 2 (Kimura); 3 (Tamura); 4 (Tajima-Nei); 5 (Jin-Nei Gamma)) * -protmethod menu [0] Multiple substitution correction methods for proteins. ... Any integer value) * -calculatea boolean [N] This will force the calculation of parameter 'a' in the Jin-Nei Gamma distance calculation, otherwise the default is 1.0 (see -parametera option). * -parametera float [1.0] User defined parameter 'a' to be use in the Jin-Nei Gamma distance calculation. ...

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• Global and Local Alignment of A.A Sequences
• GeneBee service result
• PAL2NAL output

Электронная библиотека Попечительского совета . ... Moeller T.B. - Magnetic Resonance Imaging, Parameters and Positioning . ... Название: Magnetic Resonance Imaging, Parameters and Positioning . Автор: Moeller T.B. Аннотация: . Magnetic resonance imaging is a modality that is carried out under highly standardized conditions. ... Электронная библиотека попечительского совета мехмата МГУ , 2004-2016 . ...

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• Bishwal J.P. - Parameter Estimation in Stochastic Differential Equations ::
• Smith R.C., Demetriou M.A. - Research Directions in Distributed Parameter

... If there's no significant multiple alignment , including the sequence, that you interest, then the secondary structure is built, using only the energy model (just the potential energy of the system is minimized), but very often such method will give unreliable results. ... It should be mentioned that by default, at alignment case, the RNA secondary structure will be predicted for the first sequence of the alignment. ... It is done through optimizing, not the real, but model energy of the structure. ...

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• Screening by similarity
• OUTPUT
• Screening of pattern or alignment against PROTEIN databank

... MPI_File_get_position . Returns the current position of the individual file pointer in etype units relative to the current view int MPI_File_get_position(MPI_File fh, MPI_Offset *offset) . ... All MPI routines in Fortran (except for MPI_WTIME and MPI_WTICK ) have an additional argument ierr at the end of the argument list. ierr is an integer and has the same meaning as the return value of the routine in C. In Fortran, MPI routines are subroutines, and are invoked with the call statement. ...

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• MPI_File_get_byte_offset | PARALLEL.RU - Информационно-аналитический центр по
• MPI_Pack | PARALLEL.RU - Информационно-аналитический центр по параллельным
• MPI_Unpack | PARALLEL.RU - Информационно-аналитический центр по параллельным

Estimation of translational importance of mammalian mRNA nucleotide sequence characteristics based on ribosomal profiling data O.A. Volkova1,*, Y.V. Kondrakhin2,3, R.N. Sharipov 1 2,3,4 Institute of Cytology and Genetics, SB RAS, Novosibirsk, Russia 2 Design ... Novosibirsk, Russia 4 Novosibirsk State University, Novosibirsk, Russia *ov@bionet.nsc.ru Keywords: ribosome profiling, RiboSeq, 5'UTR , mRNA , ... Until recent time there were no experimental data on the translation efficiency. ...

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• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/156.pdf
• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/164.pdf

... Optimization of instrumental parameters of the thermal lens detector for capillary electrophoresis . ... The limits of detection (S/N=3) for nitrophenols are nґ10 –6 – nґ10 –7 mol L –1 . ... Moscow University Chemistry Bulletin . 2005, Vol. ... 6, P. 411 . Copyright (C) Chemistry Dept., Moscow State University, 2002 . ... Copyright (C) Chemisty Department of Moscow State University . ... Web-design: Copyright (C) MIG and VVM . ...

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• On The Force Field Parameters For Metal Ion Coordination Sphere in Molecular
• Molecular Modeling in Chromatostructural Analysis as a New Approach in GC/MS of
• Photoacoustic detection of the parameters of laser vaporisation of amorphous

... PHP 4 >= 4.0.0) swf_polarview -- Define the viewer's position with polar coordinates . void swf_polarview ( float dist, float azimuth, float incidence, float twist) . ... The dist parameter gives the distance between the viewpoint to the world space origin. The azimuth parameter defines the azimuthal angle in the x,y coordinate plane, measured in distance from the y axis. The incidence parameter defines the angle of incidence in the y,z plane, measured in distance from the z axis. ...

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• hw_InsertObject
• swf_shapemoveto
• swf_shapelineto

... About lab . ... Online Journal "Computer graphics and multimedia" (in russian) . ... Algorithms for calculating parameters of virtual scenes in computer vision tasks . ...

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• x264 codec improvement | Graphics and Media Lab
• x264 codec improvement | Лаборатория компьютерной графики и мультимедиа

... A numerical method of parameter reconstruction in the FitzHugh-Nagumo and Aliev-Panfilov models" . Pavelchak I.A. An inverse problem for the FitzHugh-Nagumo and Aliev-Panfilov models describing the wave propagation in excitable media is considered. The problem consists in the reconstruction of model parameters using the measurements performed on the boundary of a plane domain. ... Keywords: FitzHugh-Nagumo and Aliev-Panfilov models, inverse problem, numerical methods . ...

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• "An algorithm of assigning the force parameters to atoms of organic molecules
• "The parameter continuation method and its application to optimal control
• "Low-frequency approximation and the choice of optimal elastic parameters for

... Basic channels . ... To add new channel, You have to select one of the spectral operations from the Operations list, modify or set the operations parameters and select one (for unary operations) or two (for binary operations) parent spectral channels. ... Subset of parameters in parent channel parameters vector . ... Using the left mouse button, mark the speech frames in the recorded speech (white columns in the lower spectral window, corresponding to the parent channel of this speech detector). ...

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• Options dialog
• Intelligent Systems :: Research :: :: Articles

const int nvar_ is a number of independent physical parameters involved in the evaluation of squared matrix element. const int nfunc_ is a number of constrained parameters involved in the evaluation of squared matrix element. int calcFunc(void) calculates all constrained parameters for current values of independent ones. It returns 0 in the case of success, otherwise 1. int vinf_(int numvar, char *name, double *val) provides the information about parameters. ... It returns if , or otherwise. ...

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• Batch calculations
• Widths implementation parameters
• ISR and Beamstrahlung

... Argos + GPS positions Data provided Improving Location Conclusion: getting better locations Doppler effect f < f0 f0 f > f0 Apparent frequency shift observed as the receiver is moving Relative motion between transmitter and receiver TX f0 Doppler effect Doppler effect : Each Message Received Tells us the Tag is somewhere on a CТne ity Satellite veloc A s xi ta pt ellit te sa Some geometry : intersection between a plan and a conic surface Intersection with Altitude Sphere: Two Solutions!! ...

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... Next: Plane tab Up: Client Previous: Connection to a Server Contents Index . Figure 2.4: Scan parameters. STM mode of operation. ... AFM mode of operation. ... All scan parameters can be configures in Parameters window (pic. ... Client part of `` FemtoScan '' software allows to control microscope operating in three different scanning modes - tunneling mode(STM), atomic-force mode (AFM) and resonance atomic-force (RAFM). ... It(Z) tab (STM mode), F(Z) tab (AFM mode), D(Z) tab (RAFM mode). ...

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• Plane tab
• It(Z) tab (STM mode), F(Z) tab (AFM mode), D(Z) tab (RAFM mode).
• Surface scanning