Results for "NT"
Bio-Scripts
...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 synchronize with. git f...2033 days ago
Finding Kmers from fasta sequence file
Save it in sample.fa >test TAATGCCATGGGATGTT jellyfish count -m 3 -s 100000 sample.fa -o sample.jf jellyfish dump -c sample.jf It return TGT 1 GAT 1 GGG 1 GGA 1 CAT 1 TGC 1 TAA 1 GCC 1 CCA 1 GTT 1 TGG 1 ATG 3 AAT 12024 days ago
Perl script to split fasta sequence and create overlaps
#!/usr/bin/perl use strict; use warnings; my $len = 5000; my $over = 200; my $seq_id=$ARGV[0]; my $seqFile = $ARGV[1]; my $seq; open(my $fh, "2024 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 }'2009 days ago
Backward Elimination with Python
...ion(x, SL): numVars = len(x[0]) temp = np.zeros((50,6)).astype(int) for i in range(0, numVa...x_rollback = np.delete(x_rollback, j, 1) print (regressor_OLS.summary())...2007 days ago
Perl script to count occurrence of a character !
...in/perl use strict; use warnings; my %count_of; while ( ) { my @v...t "\t", $_; #my ( $word) = m/(\w+)/; $count_of{$val[13]}++; } foreach...{$a} $count_of{$b} } keys %count_of ) { print "$word\t$count_of{$word}\n";...1952 days ago
- Download page https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastDocs&DOC_TYPE=Download Ubuntu / Debian sudo apt-get install ncbi-blast+ CentOS # download latest BLAST version wget...
1813 days ago
Palindrome Simulation commands !
...more allCommands 3315 mutate.sh in= mutant15CH101.fasta out=mutant153CH101.fasta id=97 3316 m...101_read33155_template_pass_FAH31515.faa mutant3CH101.fasta mutant15CH101.fas...10 -o paired_dat 3320 ~/Tools/art_bin_MountRainier/art_illumina -ss MSv3...1787 days ago
Resume the MIRA assembler run !
...nge working directory -r / --resume Resume an interupted assembly -h / --help Print short help and exit -v / -...1786 days ago
- Map them agaist reference avaga genome using following codes git clone https://github.com/lh3/bwa.git cd bwa; make bwa index ref.fa bwa mem -x pacbio ref.fa pacbio.fq > aln.sam bwa mem -x ont2d ref.fa ont-2D.fq > aln.sam
1777 days ago
