Results for "Command"
Bio-Scripts
Download genome using NCBI esearch command line !
#Download using command line "NC_005956.1" / "CP003784.1" esearch -db nucleotide -query "NC_005956.1" | efetch -format fasta > seq1.fa esearch -db nucleotide -query "CP003...1102 days ago
R script to visualize fastANI core-genome comparison
...e comparison # Usage: Rscript # Output: .pdf # Uses genoPlotR package: http://genoplotr.r-forge.r-project.org #Parse command line arguments query_fasta=commandArgs(TRUE)[1] subject_fasta=c...1102 days ago
- #!/usr/local/bin/perl -w # Can be easily modified to run any command on every sequence in a folder # Directory of sequences $myDir = "/home/anjana/seqs"; # Output directory (r...
2916 days ago
Needleman-Wunsch Algorithm in Perl
...lobal alignment algo (GOTHO 1982 mod) # usage statement die "usage: $0 \n" unless @ARGV == 4; # get sequences, matrix and gapcost from command line my ($seq1, $seq2, $smfi...2906 days ago
Install ATOM editor on Elemantory OS / Ubuntu
...arred, stars, test, uninstall, unlink, unpublish, unstar, update, upgrade, view. Run `apm help ` to see the more details about a specific command. Options: --color...1176 days ago
Transpose the file coordinates and plot dendrogram in R
#Save this as tr.awk { for (i=1; i2618 days ago
Download the genome from NCBI using bash script/command
#!/bin/bash # Download the genome from NCBI using command # Create a Directory mkdir genome cd genome # Look for genome assembly summary and extract the URL # USER need to...2532 days ago
Download the gff files from NCBI using bash script/command
#!/bin/bash # Download the genome from NCBI using command # Create a Directory mkdir genome_gff cd genome_gff # Look for genome assembly summary and extract the URL # USER...2524 days ago
Create genome scaffolding with Perl
...'query=s', 'pid=i', 'trimlimit=i', 'prefix=s'); # process remaining command line arguments (hopefully onl...pod2usage({-exitVal => 1, -message => "Error: Unknown command-line option or "....2309 days ago
- ...you download and install the compiler, you need to open the cmd, navigate to the folder containing the .cpp files using the "cd" command, and then execute these commands: g++ -o NewFileName Troja...
851 days ago
