Results for "Single Nucleotide Polymorphisms"
Bio-Scripts
Python script to download covid genome !
#!/usr/bin/env python3 # these are the publicly available "complete" sequences # https://www.gisaid.org/ has mor...= x['accession'] print("downloading", nm) dna = Entrez.efetch(db='nucleotide',i...1133 days ago
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 -q...1099 days ago
Retrieve NCBI GenBank records with a range of accession numbers
#!/usr/bin/perl #FILE: ncbi_search.pl #AUTH: Paul Stothard (paul.stothard@gmail.com) use warnings; use strict; use Getopt::Long; use LWP::Simple; use URI::Escap...2913 days ago
- #!/usr/bin/env perl # Usage: fastaRead.pl data.fa use strict; use warnings; my $filename = $ARGV[0]; my $sequence; open my $fileH, "
2911 days ago
Perl to print indivisual nucleotide from a sequence!
#!/usr/bin/perl use strict; use warnings; my $string = "ATGCTTGCGT?AAATG??CT?GCGTA"; my @chars = split("", $string); print "First character: $chars[0]\n";2911 days ago
Count GC Content in nucleotide sequence with Perl
#!/usr/bin/perl -w ### Usage: get_gc_content.pl ### #--------------------------------------------------------...2903 days ago
- #USAGE: CI_normal(matrix[,c(x:y)],97.5) - multiple column from a normal distribution #USAG...a t distribution #USAGE: CI_normal(matrix[,x],97.5) - single col...rmal distribution #USAGE: CI_tdist(matrix[,x],97.5) - single column...
2869 days ago
Calculate Dinucleotide Frequency with Perl
#!/usr/bin/perl -w use strict; my ($genome, $head, $tail); my (%mono_nt, %di_nt); $/ = ">"; open my $fasta, '2335 days ago
Biological Sequence handling with Perl !
package Sequence::Generic; # File: Sequence/Generic.pm use strict; use Carp; use overload '""'...ppend); } 1; Back to Article Listing Two package Sequence::Nucleotide; # file: Sequence/Nucleotide.pm...2178 days ago
- ➜ trinityrnaseq-Trinity-v2.6.6 git:(master) ✗ ./Trinity --seqType fq --max_memory 250G --left...s completed successfully. :-) ** Harvesting all assembled transcripts into a single multi-...
2124 days ago
