Results for "Protein Structure Prediction and Drug Design"
Bio-Scripts
Parse a genbank file using regular expressions
#! /usr/local/bin/perl -w $genbank = "genbank_file.txt"; op...$cds_end\n"; } elsif (/(\/translation=")(.*)/) { # protein product begins print "Translation: "; $protei...2914 days ago
Retrieve NCBI GenBank records with a range of accession numbers
#!/usr/bin/perl #FILE: ncbi_search.pl #AUTH: Paul Stothard (paul.stothard@gmail.com) use warnings; use strict; use Getopt::Long; use LWP::Simple; use URI::Es...2913 days ago
Read a tab delimited file and search with perl
use strict; use warnings; use Data::Dumper; use Text::CSV; use IO::Handle; my $file = "/home/urbe/Tools/Alienomics_v0.1/Alienomics/output/intermediate_files/rRNA/refGene.megablast"; open my $fh, "[0]\n"; warn Dumper $row; # To see the structure }2522 days ago
- #!usr/bin/perl use strict; use warnings; my %id2seq = (); my $id = 0;...lit /\s+/, $_; my @newval=@val; shift @newval; print ">$id [ gene=$val[0] ] [ protei...
2510 days ago
Plot the clock using Lastz -gerenal outfile
use strict; use warnings; use Statistics::R ; use List::Util qw(sum); #Usage perl clockPlot.pl Palindrome.palfc 1500 my $R = Statistics::R->new() ; $R->startR...2296 days ago
Perl script to find coding regions in DNA sequences
#!/usr/bin/perl -w use strict; # if the number of input arguments is...regular expression # A group of letters and a decimal number ($codon...le of codon frequencies divided # by the rando...quences: high values (positive) for coding protei...2152 days ago
Perl script to run SATSUMA in loop !
#!/usr/bin/perl -w use strict; use File::Temp qw(tempfile); # Usage perl 1by1.pl for S...#Store the ids if ($ARGV[1] eq "ids") { my $idFile="palindrome_ids.txt"; open my $handle,...2137 days ago
Perl script to convert GFF 2 FASTA !
#!/usr/bin/perl use strict; use warnings; use Bio::Seq; use Bio::SeqIO;...s - translated sequence (starting with ATG and ending with a stop codon incl...ons, but containing untranslated exons) # prot...- the entire gene sequence (including UTRs and in...2136 days ago
- #http://www.nupack.org/downloads/source ➜ tools git:(master) ✗ cd n...uncUtils.c: In function ‘PrintStructure’: pfuncUtils.c:950:7: warnin...red/constants -c -o ReadCommandLineNPK.o ReadCommandLineNPK.c ReadCommandLineNPK....n_engine.c: In function ‘parseStructure’: design_engine.c:1257:2:...
2023 days ago
Pack a perl program with their dependencies on Ubuntu !
#Follow steps to create your own executable ./web jit@jit-HP-Pro...opt-argvfile-perl libmodule-scandeps-perl libmodule-signature-perl li...ative field that involves the design, analysis, and interpretat...SvABA: Structural variation and...BacteriaAssociationsPopulationStructure github.com - GeneM...1508 days ago
