... annotate . ... Fixed a serious bug with saving sequence markups when alignment does not have all of the sequence monomers . ... dendik@1076 . ... 3 This release collects a lot of changes that happened during half year . ... 12 * and a lot of work on ` blocks3d ` and ` pair_cores ` with many new features , . ... markup ` ( not to be . ... 68 * new : Alignments , Sequences and Blocks now can have Markups , see the wiki . ... 69 * new : File format 'markup' for storing alignment with arbitrary markups ...

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• allpy: allpy/rna.py annotate
• allpy: allpy/dna.py annotate
• allpy: allpy/base.py diff

... Query: E. coli K12 tRNA (valV, selC, asnV, leuT, argZ from EMBL entry U00096 ) . ... BLASTN (both) | ... Nhunt . ... BLASTN (optimal): 3.5 s . BLASTN (default): 0.8 s . ... Nhunt: 7 s The program Nhunt surpass all other tested programs in sensitivity. ... Nhunt BLASTN (optimal): 2.9 s . ... Nhunt: 3.7 s BLASTN with default parameters actually cannot find any significant homologues. ... Nhunt-3: 1.7 s BLASTN with default parameters actually cann't find any significant homologues. ...

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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

... annotate . ... grid ( padx = 15 , pady = 10 ) . ... grid ( row = rownum , column = 0 , padx = 10 , pady = 5 ) . ... grid ( row = rownum , column = 1 , padx = 10 ) . ... grid ( row = 4 , column = 0 , columnspan = 2 , padx = 15 , pady = 10 ) . ... grid ( row = 1 , column = 0 , columnspan = 2 , pady = 10 ) . ... grid ( row = 0 , column = 0 , padx = 10 , pady = 5 ) . ... grid ( row = 0 , column = 1 , padx = 10 ) . ... grid ( row = 0 , column = 2 , rowspan = 6 , padx = 50 , pady = 10 ) . ...

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• petri_dish: tk1.py annotate
• Changeset 94:da7e8ebce313 тАУ Cyclyc Cell Automata
• petri_dish: 31d64bb536aa scale.py

S .. ... a database of structures of DNA-protein and RNA-protein complexes. ... a program for finding hydrophobic clusters in 3D structures of macromolecules . ... search of conserved hydrophobic clusters in aligned 3D structures of protein families . ... a program for analysis of multiple alignments . ... a program for automatic detection of aligned blocks in a multiple protein alignment. ... a program for detection of aligned blocks in a multiple alignment of sequences of PDB chains. ...

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• ETS_all_contacts alignment
• SVETKA, a program for multiple sequence alignments analysus
• SVETKA, a program for multiple sequence alignments analysis

Home page . ... GeneBee . ... A4 - Genebee Adaptive Automated Annotation . ... Home . Advanced query . Annotation title . ... ITA[1,1] ITA[0,1] USUAL . Additional output . ... NRAS_1 MTEYKLVVVG AGGVGKSALT IQLIQNHFVD EYDPTIEDSY RKQVVIDGET CLLDILDTAG QEEYSAMRDQ VFAINNSKSF ADINLYREQI KRVKDSDDVP MVLVGNKCDL PTRTVDTKQA HELAKSYGIP GVEDAFYTLV REIRQYRMKK LNSSDDGTQG CMGLPCVVM . ... Last updated: December 23, 2008. ...

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• Genebee Predicted Annotation - Advanced
• GeneBee
• Genebee Predicted Annotation Help

Using stand-alone SDPfox . ... To add a new specificity group, type in the group name and press "Add" . To change composition of specificity groups, select two groups: first, from which to remove sequences, and second, to which to add sequences. ... For a constructed grouping, it is possible to run SDPgroup, re-randomize grouping or move sequences according to the best weights (see algorithm) under the link 'SDPgroup'. ... These sequences are likely to be re-grouped after SDPgroup is performed. ...

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• RNA Alignment
• Input Formats
• SDPpred

NGS Data Analysis with Unipro UGENE Olga Golosova, Yuriy Vaskin, German Grekhov, Yuliya Algaer UNIPRO, Lavrentieva ave. ... That is where Unipro UGENE NGS framework comes in play. ... Moreover, the UGENE toolkit allows one to automate common tasks by creating workflows with the integrated tools using the UGENE Workflow Designer. Analysis of NGS data with UGENE may start, for example, from quality control of raw NGS data, received from a sequencing facility, with the integrated FastQC [3] tool. ...

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• http://mccmb.belozersky.msu.ru/2013/abstracts/abstracts/18.pdf
• http://mccmb.belozersky.msu.ru/2013/abstracts/abstracts/237.pdf
• http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/161.pdf

GDE . The GDE (Genetic Data Environment) is a set of programs for multiple sequence alignment and analysis. The programs use an expandable user interface which allows the addition of external analysis functions without any rewriting of code. ... ftp://ftp.bmc.uu.se/pub/linnaeus/software/gde/ . Source Code Availability: Yes . ... None . ... SAL Home | Other Scientific Fields | Chemistry, Biology Related . ... SAL@KachinaTech.COM . ...

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• SAL- Other Scientific Fields - Chemistry, Biology Related - gBioSeq
• SAL- Other Scientific Fields - Chemistry, Biology Related - DCSE
• Zen: NewExtentsBasedRanking

Электронная библиотека Попечительского совета . ... Althaus E. - A branch-and-cut algorithm for multiple sequence alignment . ... Название: A branch-and-cut algorithm for multiple sequence alignment . Автор: Althaus E. Язык: . ... Электронная библиотека попечительского совета мехмата МГУ , 2004-2016 . ...

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• Brown S.M. - Bioinformatics: A Biologist's Guide to Biocomputing and the
• Korf I., Yandell M., Bedell J. - Blast (Basic Local Alignment Search Tool) ::
• Lathrop R.H., Rogers Jr R.G., Smith T.F. - A Bayes-optimal sequence-structure

Copyright 1999-2016 Gentoo Foundation # Distributed under the terms of the GNU General Public License v2 # $Id$ EAPI=6 PYTHON_COMPAT=( python2_7 python3_{4,5} ) inherit distutils-r1 python-r1 DESCRIPTION= Python interface for the SAM/BAM sequence alignment and mapping format HOMEPAGE= https :// github.com / pysam-developers / pysam http://pypi.python.org/pypi/ pysam SRC_URI= https :// github.com / ...

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• http://mirror.msu.net/pub/rfc-editor/rfc-ed-all/pdfrfc/rfc660.txt.pdf
• http://mirror.msu.net/pub/rfc-editor/rfc-ed-all/rfc660.txt
• http://mirror.msu.net/pub/rfc-editor/rfc-ed-all/rfc12.txt

MOSCOW STATE UNIVERSITY -- Faculty of Biology -- Department of Human Physiology -- . ... Our interest is the secret springs of work of a brain. How can a new idea be born in the brain if the physical environment remains constant? ... What mechanisms of the brain are broken in schizophrenia? ... For this purpose we create brain-computer interfaces (BCI) based on modern methods of computational electroencephalography. ... Department of Human Physiology . ... Former Visitors . ... Former students . ...

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Next: Running the example Up: Java Interface Previous: Anatomy of an operation . ... As we have seen in figure 6.2 and from the discussion of the previous section, an operation invocation consists of the following elements: . a name of the operation . ... The conceptual graph depicted in figure 6.3 shows how to translate the operation invocation for deposit( 100 ) using the DII (again concept nodes are denoted by white rectangles and relation nodes by black rectangles). ...

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• Dynamic Invocation Interface
• Java Interface
• Interface inheritance

Roman Sutormin rsutormin@gmail.com Professional experience 05/2013 ­ present: Lawrence Berkeley National Laboratory (Berkeley, CA, USA) Software developer Development of JSON based storage system used for keeping biological data involved in public KBase services. ... 10/2009 ­ 08/2011: Mail.Ru Group (Moscow, Russia), Software developer Support and development of data warehouse (PostgreSQL) and administration web tool (JBoss + GWT) on serverside of MMO game "Allods Online". ... 2013 Jul 1514(1):476. ...

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• http://storage.bioinf.fbb.msu.ru/~roman/Sutormin_CV_aug2013.pdf

There are the following elements of the user interface in the CompHEP package: On-line Help, Menu, Message, String Editor, Table Editor, Diagram Viewer and Plot Viewer . You can control them using the Arrows keys, Enter , Esc 1 , Backspace , PgUp / PgDn 2 keys and the mouse click. CompHEP is sensitive to the left mouse button release. ... 1 Use the 'Ctrl [' sequence if the Esc key is absent on your keyboard . ... On-line Help. Menu. ... String Editor. ... Diagram Viewer. Plot Viewer. ...

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• Elements of the user interface
• [Comphep-common] Question using many events with CompHEP Interface (fwd)
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... Interface description . ... 6 Distributed array creating and deleting . ... 13.4 Access to elements of local part of distributed array . 13.4.1 Requesting if array element is allocated in local part of distributed array . ... 13.4.5 Coping element of local part of distributed array to element of local part of other distributed array . 13.4.6 Requesting address of element of local part of distributed array . ... 14.5 Access to distributed array elements, allocated in remote element buffer . ...

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• Lib-DVM. Interface description. Part 2 (6-7)

Key-words: rhythm, stress, syllable, rhythmic structure, syntagm, utterance, prosody, speech production, speech perception . ... In speech communication, RS are both units of speech production and speech perception. ... The research of speech rhythm in diachrony and synchrony consists of the analysis and the description of speech rhythmic units concerning Old Church Slavonic, Old Russian, Old High German in diachrony and Modern Russian, German, Czech and Bulgarian in synchrony. ...

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SCIENTIFIC TASKS AND RESULTS . In the results of searching for new perspective solid state materials for the quantum electronics, non-linear optics and other fields of physics more than 200 various oxide compounds were synthesized and peculiarities of their atomic structure and physical properties are studied. Single crystals of 80 such the compounds are grown and thoroughly investigated. ... A family of oxide-ion conductors on the base of La 2 Mo 2 O 9 (30.10.09) . ... Main page ...

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• Seminar in Polymer Physics
• Polymer and Soft Matter Theory Lab - Official Website
• Sequence Design of Copolymers with Special Functional Properties - Chair of

Wireshark · · · · · (Win, Mac, Linux) Open Source (http://www.wireshark.org) · · · ( ) · 2 1 · # usermod ­a ­G wireshark user · wireshark root user@host:~$telnet ya.ru 80 Trying 213.180.193.3.. ... MAC 2. MAC IP ARP 3. L4 Interface # 1 2 3 4 Domain # 1 1 Eth Address 00:00:00:00:00:0a 00:00:00:00:00:09 IPv4 Address 10.0.1.2 10.0.1.1 10.0.2.2 10.0.0.3 Flow # 1 2 Src Itf # 1:49153 3:49153 Dst Itf # 4:234 1:432 Protocol TCP UDP Edges 1-2 1-2 .. ...

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... MPI: Message Passing Interface - русскоязычная страница . ... Стандарт MPI-2: Extensions to the Message-Passing Interface включает следующие основные группы функций: . ... Tutorial on MPI: The Message Passing Interface . ... Writing Message-Passing Parallel Programs with MPI - учебный курс по MPI, созданный в EPCC (The University of Edinburgh). ... 18 Июля 1997 г. Опубликован стандарт MPI-2: Extensions to the Message-Passing Interface. ... MPI: A Message-Passing Interface Standard . ... Центры . ...

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