Results for "I'm interested in understanding the epigenetic basis of several kinds of biological processes and"
Bio-Scripts
Needleman-Wunsch Algorithm in Perl
#!/usr/bin/perl # USAGE: perl nw.pl HEAGAWGHEE PAWHEAE BLOSUM50.txt -8 # See: "Biological sequence anaysis" Durbin et...: $0 \n" unless @ARGV == 4; # get sequences, matrix and gapcost from command line my ($seq1, $seq2, $smfi...2919 days ago
Implementation of biological random mutation with Perl
#!/usr/bin/perl -w use strict; use warnings; #sequ...AAAAAAAAAAAAAAAAAAA \ n"; my $I; my $mutant; srand (time...($DNA); print "Mutate \ n". $DNA; print "Here is the the original DNA: \ n"; print...2915 days ago
Download the genome from NCBI using bash script/command
#!/bin/bash # Download the genome from NCBI using command...k for genome assembly summary and extract the URL # USER need to provide the right...mmalian # -for vertebrate_other curl 'ftp://ftp.ncbi.nlm.ni...> genomic_file_viral #Read the url from file and download FILES=$(pwd)/* f...2546 days ago
Download the gff files from NCBI using bash script/command
#!/bin/bash # Download the genome from NCBI using command...k for genome assembly summary and extract the URL # USER need to provide the right...mmalian # -for vertebrate_other curl 'ftp://ftp.ncbi.nlm.ni...> genomic_file_viral #Read the uerl from file and download FILES=$(pwd)/* f...2537 days ago
Biological Sequence handling with Perl !
package Sequence::Generic; # File: Sequence/...nate', 'fallback' => 'TRUE'; # These...ift; croak "$class must override the new()...return 'Generic Sequence'; } # These met...# Concatenate two sequences together and return the result sub conc...2195 days ago
Perl script to run SATSUMA in loop !
#!/usr/bin/perl -w use strict; use File::Temp qw...l for SATSUMA analysis # User need to set the refere...tsize = 1; my $cpu=40; my @ids; #Store the ids...my $idFile="palindrome_ids.txt"; open my $handle, '...2154 days ago
- ...either be accession.version (ex:..."chr1" or "1"). "from" and "to" are 1-based...are placed in files *_1.fastq and...for other than SOLiD). Quality...
2140 days ago
- ➜ BorisTrinityAssembly /home/urbe/Tools/tr..., Rob Patro, Julian Hibberd, and Steve...anscriptome assembly using three kinds of metrics: 1. sequence...2. read mapping based (if --left and --right are given) 3. refere...Show some example commands with explanations ➜ BorisT...
2137 days ago
Installing docker for Bioinformatics on Ubuntu !
jit@jit-HP-Pro-3335-MT:~/Downloads$...WARNING: Adding a user to the "docker" group will grant the abili...overrides DOCKER_HOST env var and default context set with "docker co...r archive history Show the history of an image images...p Display the running processes of a container unpau...1527 days ago
Commands to install conda in Ubuntu !
jit@jit-HP-Pro-3335-MT:~/Downloads$ mkdir jittmp jit@jit-HP-Pr...19.03 In order to continue the installation process, please review the licens..., shared -library files from the Intel(TM) Math Kernel Library...the import, possession, use, and/or re-exp ort to another cou...1525 days ago
