Results for "my"
Bio-Scripts
Perl script to check perl modules and download NCBI, BUSCO, Taonomy, Silva databases !
...mandatory database # BEGIN { my @import_modules = ( 'Cwd...'File::Find', 'Bio::DB::Taxonomy', 'Pod::Usage',...omics\n"; #Install NCBI taxdump my $url = 'ftp://ftp.ncbi.nlm.ni...https://busco-archive.ezlab.org/ my $busco_url_LSU = 'https://bus...1215 days ago
- ...talled in the system and download the mandatory database # BEGIN { my @import_modules = ( 'Cwd...atistics::R', 'Math::Round', 'File::Find', 'Bio::DB::Taxonomy', 'Pod::Usage',...
1213 days ago
Perl script to check modules installed !
...the required modules have been installed in the system # BEGIN { my @import_modules = ( 'Cwd...atistics::R', 'Math::Round', 'File::Find', 'Bio::DB::Taxonomy', 'Pod::Usage',...1210 days ago
Corona variant calling steps !
#!/bin/bash FILE_PATH="data/trimmed_fastq_small/" find "$FILE_PATH" -name "*.fasta" | while IFS= read -r my_file do filename=$(basename "$my_file") basename=$(basename "$my_file" .fasta)...1100 days ago
- Lenovo-ideapad-320-15ISK:~/Downloads/MyTools/$ sudo apt install jellyfish Reading package lists... Done Building dependency tree Reading state information... Done The f...
1036 days ago
Tadpole is 250x faster than SPADes assembler !
lege@jit-Lenovo-ideapad-320-15ISK:~/Downloads/MyTools/Vir$ tadpole.sh Written by Brian Bushnell Last modified July 16, 2018 Description: Uses kmer counts to assemble contig...1031 days ago
- ...terminal using conda. $ conda create -n myenv $ conda create -n myenv Python=3.7 $ conda env...te an Environment for Use $ conda activate myenv #Update Conda Environme...talled Dependencies Within an Environment (myenv) $ conda list
1016 days ago
Perl script for Smith-Waterman Algorithm
...\n" unless @ARGV == 2; # get sequences from command line my ($seq1, $seq2) = @ARGV; # scoring scheme my $MATCH = 1; # +1 for lett...tch my $GAP = -1; # -1 for any gap # initialization my @matrix; $matrix[0][0]{score...1005 days ago
Downloading mmseqs databases !
...mmseqs databases [options] Name Type Taxonomy Url - UniRef100 A...sprot tmp #In this case, since Swiss-Prot has a value yes in the Taxonomy column above, all necessary f...997 days ago
Installing Covid19 Environment !
...action: \ Krona installed. You still need to manually update the taxonomy databases before Krona can generate taxonomic reports. The update script is ktUpdateTaxonomy.sh. The default location for...978 days ago
