Results for "RA"
Bio-Scripts
...-local-repo-with-remote-one This makes your local repo exactly like your remote repo. Remember to replace origin and master with the remote and branch that you want to synchroni...1992 days ago
Split the multifasta in separate files !
cat Avaga_allPalindrome.fa | awk '{ if (substr($0, 1, 1)==">") {filename=(substr($0,2) ".fa")} print $0 > filename }'1968 days ago
Backward Elimination with Python
...n(x, sl): numVars = len(x[0]) for i in range(0, numVars): regr...) if maxVar > sl: for j in range(0, numVars - i):...emp = np.zeros((50,6)).astype(int) for i in range(0, numVars): regr...1965 days ago
Perl script to count occurrence of a character !
#!/usr/bin/env perl # -*- coding: utf-8 -*- #!/usr/bin/perl use strict; use warnings; my %count_of; while ( ) { my @val = split "\t", $_; #my...1911 days ago
- my @tests = ( ["FOO", "BAR"], ["CRATE", "TRACE"], ["CRATE", "CRATE"], ["TRACE", "CRATE"], ["CREATE", "TRACT"], ["DWAYNE", "DUANE"], ); for my $word_pair (@tests) { #Nice way to split the...
1810 days ago
Palindrome Simulation commands !
...nt153CH101.fasta > allPalindromeSimulated.fa 3319 ~/Tools/art_bin_MountRainier/art_illumina -ss MSv3 -s...-p -l 251 -f 100 -m 300 -s 10 -o paired_dat 3320 ~/Tools/art_bin_MountRainier/art_illumina -ss MSv3 -s...1746 days ago
Resume the MIRA assembler run !
mira -r manifest_file Usage: mira [options] manifest_file [manifest_file ...] Options: -c / --cwd= directory Change working directory -r / --resume...1745 days ago
- #!/bin/bash cd `pwd` perl ~/apps/SSPACE-1.2_linux-x86_64/SSPACE_v1-2.pl \ -l libraries.txt \ -s Contigs_over200_nocp.fasta \ -k 5 \ -a 0.7 \ -x 1 \ -m 30 \ -o 20 \ -b Rayk31_scaffolds_extension
1733 days ago
Perl script to run in parellel !
...sr/bin/perl use strict; use warnings; use Parallel::ForkManager; use Bio::S...e_data_ref}; my $n_processes = 4; my $pm = Parallel::ForkManager->new( $n_pro...= @_; print "starting XFOIL instance with parameters $chr_set!\n"; touc...1697 days ago
Samtools commands for bioinformatician !
...ds ### calling snp and indels with no frequency threshold # omit -v parameter bcftools call -c sal_va...ults into txt file samtools depth /path/to/sorted_bam.bam > /path/to/coverage_results.txt ### note: retu...1613 days ago
