... add test.py multiple pdb per one chain ability added fix: tabs -> spaces fix: get_from_fasta -> from_fasta sequence.pdb_chain_add -- to be done . ... 12 import allpy_data . ... 14 class Project ( object ): . ... 31 Project(sequences, alignment) -> new Project with sequences and . ... 33 Project(fasta_file) -> new Project, read alignment and sequences . ... 38 self . ... 97 >>> sequences,alignment=project.Project.from_fasta(open("test.fasta")) . ... 133 alignment [ sequences [ - 1 ]] = alignment_list...

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• allpy: ceea02544d83 lib/project.py
• allpy: 757f2a1f8732
• allpy: f8bd7c469fcf

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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... Parsimony method . ... It is based on the following principle: the ancestral sequences (posed in nodes of a phylogenetic tree) should be such that the minimal required number of character replacements on the branches of the tree is less than for any other choice of sequences. ... If the preliminary character of the node is * , but the output character of its immediate ancestor is some letter (say, X ), and its set of possible characters contains X , then the output character of the node is also X . ...

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• SDP home page
• About this project
• SDPpred

... 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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... 3.0.4 - 3.0.18 only, PHP 4 >= 4.0.0) imap_fetch_overview -- Read an overview of the information in the headers of the given message . array imap_fetch_overview ( int imap_stream, string sequence [, int flags]) . ... mbox = imap_open("{your.imap.host:143}","username","password") or die("can't connect: ".imap_last_error()); $overview = imap_fetch_overview($mbox,"2,4:6",0); if(is_array($overview)) { reset($overview); while( list($key,$val) = each($overview)) { print $val->msgno . ... val->subject . ...

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• imap_mail_move
• range
• imap_mail_copy

This diagram shows how the 'vertical-align' properties on cells combine to determine the height of the row containing the cells. The diagram also illustrates the meaning of some values of 'vertical-align' that apply to table cells: baseline, top, bottom, and middle. The diagram shows a row of five (labeled) table cells of varying heights and alignments. ... The first cell is aligned with the row baseline and extends to just below the row top. ...

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• Long description illustrating absolute positioning with respect to the initial
• Long description for anonymous block box
• Long description for example showing inside vs. outside list marker

HMMER . The HMMER hidden Markov model software package and other software for large-scale genome analysis using probabilistic models of proteins and RNAs, from Sean Eddy's lab at Washington University, St. Louis USA. HMMER -- Hidden Markov models for sequence profile analysis. ... COVE -- an implementation of stochastic context free grammar methods for RNA sequence/structure analysis. ... SAL Home | Other Scientific Fields | Chemistry, Biology Related . ... SAL@KachinaTech.COM . ...

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• Zen: CASDB
• SAL- Other Scientific Fields - Chemistry, Biology Related - Sequin
• xntpd - Network Time Protocol (NTP) daemon

Each row in the Particles Table describes a particle - anti-particle pair. ... 2*Spin for a doubled particle spin: 0 for scalar, 1 for spinor and 2 for vector particles. ... In this case the anti-particle "A+" is transformed by conjugated representation. ... Aux for an auxiliary field which allows to modify particle propagators. ... spin 0 case: . ... Zero mass vector particle must be marked as a gauge one using the Aux field (see below). ... is permitted for vector ( 2*spin=2 ) particle. ...

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... Множественное выравнивание последовательностей. ... Ознакомление с программой Muscle. ... Выполнив команду: wossname alignment я посмотрела список программ EMDOSS, так или иначе связанных с выравниваниями: aligncopy Reads and writes alignments aligncopypair Reads and writes pairs from alignments consambig Create an ambiguous consensus sequence from a multiple alignment diffseq Compare and report features of two similar sequences distmat Create a distance matrix from a multiple ...

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• UniProt fields
• SwissProt fields

The QKeyEvent class contains parameters that describe a key event. ... QKeyEvent  ( int type, int key, int ascii, int state )  . ... void  accept  ()  . ... Key events occur when a key is pressed or released when a widget has keyboard input focus. A key event contains a special accept flag which tells whether the receiver wants the key. ... Constructs a key event object. ... Sets the accept flag of the key event object. ... Clears the accept flag parameter of the key event object. ...

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• Qt Toolkit - QImageIO Class
• Qt Toolkit - QRegion Class
• Qt Toolkit - QCloseEvent Class

... 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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... Siberian Lang . Minority languages of Siberia as our cultural heritage . ... The project ?Development of the web-site ?Minority languages of Siberia as our cultural heritage? (on the material of the languages of the basin Middle Yenisei and the Middle and the Upper Taz)? was realized at the Laboratory for Computational Lexicography, Research Computing Centre, Lomonosov Moscow State University, with financial support from Russian Foundation for the Humanities, grant 12-04-12049.љ ...

13. Derived datatypes | PARALLEL.RU - Информационно-аналитический центр по

14. GluePlugin - TWiki - TWiki

15. : Package ucar.netcdf

16. Firefly/PC GAMESS standard MCQDPT2 benchmark results on modern hardware

17. SDPsite - Algorithm Format requirements

18. FASTA format description

19. http://mccmb.belozersky.msu.ru/2015/proceedings/abstracts/197.pdf

20. http://mirror.msu.net/pub/gentoo-portage/sci-biology/mafft/mafft-7.050.ebuild