... First, calculate percentages of amino acids in every column + contribution = 1.0 / len ( self . sequences ) + all_columns = [] + for position in range( len ( self )): + column _percentage = {} + for seq in self.body : + if self.body [seq][position] is not None : + aa = self.body [seq][position].code + else: + aa = None + if aa in allpy.data.amino_acids: + if aa in column _percentage.keys(): + ...

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• allpy: 9f96bc38bc3d lib/project.py
• allpy: 7f8922db4e55 lib/project.py
• allpy: b7b963287d31 lib/project.py

The files containing information about Affymetrix microarrays were downloaded from the official Affymetrix site. ... Probe sequences were mapped to the genome using Blat. ... The hits found "probe alignment regions" were . ... We annotated each probe alignment region using the mRNA and EST alignments provided by UCSC, considering only . ... The textual part of the interface consists of probe information section, probe alignment section and transcription state . ... Each gene and each probe alignment . ...

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• Geometrical core

... 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 this project
• SDP home page
• Inquiry information || Parsimony algorithm

This diagram illustrates the effects of absolutely positioning a box ("inner") with respect to a containing block established by a relatively positioned ancestor ("outer"). ... The "inner" box has been positioned relative to the top and left edges of the "outer" element's first inline box. ... The reference edges for positioning the "inner" box are indicated in the diagram by thick dashed lines. ... 1 Beginning of body contents.| ... 4 [(+200, -100)] 5 Inner 6 contents. ... Inner contents" is blue. ...

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• Long description for example illustrating absolute positioning
• Long description illustrating absolute positioning with respect to the initial
• Long description of example illustrating table row height calculations and

Dataset and Motifs . ... Motif Diagrams . ... The E-value of a sequence is the expected number of sequences in a random database of the same size that would match the motifs as well as the sequence does and is equal to the combined p-value of the sequence times the number of sequences in the database. ... Following the description line(s) is a line giving the length, combined p-value, and E-value of the sequence as defined in Section I. The next line reproduces the motif diagram from Section II. ...

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... Minimal size of Clud clusters (residues) . ... An alignment of a set of structures is a set of positions , to each position some atoms from different structures correspond. ... Hydrophobic cluster of a single protein structure is a separated pool of nonpolar atoms. Usually there is the biggest cluster in the protein called hydrophobic core. ... ConClus program is able to detect of conservative hydrophobic clusters for a family of related protein domains or just for a set of aligned proteins. ...

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... It interpolates the grid at the positions in the table and writes out the table with the interpolated values added as a new column. A bicubic [Default] or bilinear [ -Q ] interpolation is used, requiring boundary conditions at the limits of the region (see -L flag option). xyfile This is an ASCII [or binary, see -b ] file where the first 2 columns hold the (x,y) positions where the user wants to sample the 2-D data set. ... Default is 2 input columns]. -bo Selects binary output. ...

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• http://xray.sai.msu.ru/~ivan/gmt/man/fitcircle.html
• http://xray.sai.msu.ru/~ivan/gmt/man/blockmedian.html
• http://xray.sai.msu.ru/~ivan/gmt/man/blockmode.html

... x264 is an open source codec of standard MPEG4 AVC/H.264, developed by programmers from all over the world. ... Accumulated during previous frames' compressions statistic is actively used by codec to improve effectiveness of adaptive models. ... These parameters are used only before encoding start, so, our improvements are more significant for short sequences. ... 3 Results of codec x264 modification on "flower" sequence . ... 5 Results of codec x264 modification on "flower" sequence, low bitrates ....

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• x264 codec improvement | Лаборатория компьютерной графики и мультимедиа
• GML MatLab Camera Calibration Toolbox | Graphics and Media Lab
• GML MatLab Camera Calibration Toolbox | Лаборатория компьютерной графики и

... GeneBee . ... A4 - Genebee Adaptive Automated Annotation . ... Annotation title . General options . ... DotHelix options . ... threshold (4 to 50) . ... DNA/RNA Dayhoff Johnson Blosum 30 Blosum 50 Blosum 62 Pam 60 Pam 120 Pam 250 Gonnet 120 Gonnet 250 Gonnet 350 . Supermotif's options . ... Maximum number . ... FT fragment picture options . Max number of FT . ... Other options . ...

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• RNA secondary structure prediction
• Bioinformatics portal, Moscow State University
• FASTA format description

... Next . PHP 3 <= 3.0.18, PHP 4 >= 4.0.0) gzseek -- Seek on a gz-file pointer . int gzseek ( int zp, int offset) . Sets the file position indicator for the file referenced by zp to offset bytes into the file stream. ... If the file is opened for reading, this function is emulated but can be extremely slow. If the file is opened for writing, only forward seeks are supported; gzseek then compresses a sequence of zeroes up to the new starting position. ... See also gztell() and gzrewind() . ...

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• dio_seek
• mb_strpos
• substr

... 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
• SDPpred
• SDPsite

... Description . Catalog . ... In the Catalog, we publish equatorial (ЮБ 2000 , ЮД 2000 ) and galactic (l,b) coordinates of cluster centers derived as the position of overdensity in 2MASS catalog (Koposov et al. ... Distances, color-excesses and ages are the mean-square values calculated using all available evaluations from different color-magnitude diagrams. ... There are individual pages for every cluster where all available plots and parameters are published. ... 2002). ...

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... 2010-05-05 05:06 . 1.3K . ...

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• The Linnaean Collection of the Herbarium of Moscow State University: digital
• Index of /shipunov/ang/haptanthus/20100423_haptanthus
• Systema Naturae

Application of the Quickhull algorithm's principles to the double description method" . Bastrakov S.I., Zolotykh N.Yu. The double description method known also as the Motzkin-Burger algorithm is a method for computing the general solution of a system of linear inequalities. ... The numerical results demonstrate a number of advantages of the proposed modification over the original double description method and (in many cases) over the Quickhull algorithm. ... PostScript (in Russian) (1.51MB) . ...

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• "A method of automatic constructing a model of a parallel program in terms of

... New combination is proposed: Pseudoprionus altimontanus (Kabakow et Dolin, 1996) comb. nov. was originally described as Prionus Geoffroy, 1762. New synonyms are established: Prionoblemma Jakovlev, 1887 = Usprion Plavilstshikov, 1915, syn. nov. and Prionoblemma przewalskyi Jakovlev, 1887 = Usprion semenovianum Plavilstshikov, 1915, syn. nov. ... Предложено новое сочетание: Pseudoprionus altimontanus (Kabakow et Dolin, 1996) comb. nov.; вид был первоначально описан в роде Prionus Geoffroy, 1762. ...

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• On a taxonomic position of the weasel (Carnivora, Mustela) from the Cheju
• Definition of the type material of several nominal taxa of pikas (Lagomorpha:

... A regular expression (regex) is a powerful way of specifying a complex search. MySQL uses regular Henry Spencer's inplementation of regular expressions. ... MySQL uses the extended version. This is a simplistic reference that skips the details. To get more exact information, see Henry Spencer's regex(7) manual page that is included in the source distribution. ... A regular expression describes a set of strings. The simplest regexp is one that has no special characters in it. ...

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• Introduction
• Terms Used to Describe Modules - Apache HTTP Server
• mod_usertrack - Apache HTTP Server

Anchoring patterns and point mutations in pairwise alignments using AlignMe X-ray crystal structures have revealed that numerous membrane proteins, such as GPCRs or some secondary transporters, despite the lack of any detectable sequence similarity between them, still share very similar 3D structures. ... The novel feature allows the user to define any number of anchors with varying strength for improving the quality of pairwise alignments in challenging cases lacking notable sequence similarity. ...

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• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/156.pdf
• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/197.pdf
• http://mccmb.belozersky.msu.ru/2013/abstracts/abstracts/244.pdf

Multichannel Flare Spectrograph . ... phi - the angle between the green vertical line passing through the solar disk image and the violet radius vector "r" of the object located at the center of the spectrograph slit- red cross. positive - clockwise, negative - counterclockwise . ... mx = x coordinate of the coelostat main mirror . ... x : carthesian solar coordinate alog axis parallel to solar equator (in arcsec) . y : carthesian solar coordinate alog axis parallel to solar axis (in arcsec) ...

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• Technical Details
• HSFA 2 technical description Technical Details

... Measurement of the MASS detectors parameters with mass program January 24, 2015 [112707] . MASS/DIMM electronics. ... Turbina-core(D): Dimm User Guide. ... N.Shatsky, V.Kornilov, The revision of the MASS/DIMM star catalogue. ... О.Возякова, В.Корнилов, Н.Шатский, Новое программное обеспечение прибора MASS/DIMM. ... V.Kornilov, N.Shatsky, S.Potanin, O.Voziakova, B.Safonov Preliminary results of astroclimate parameters measurements at the Sternberg 2.5m telescope installation site. ...

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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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• SAL- Other Scientific Fields - Chemistry, Biology Related - HMMER
• SAL- Other Scientific Fields - Chemistry, Biology Related - SC_rate
• SAL- Other Scientific Fields - Chemistry, Biology Related - ClustalW