Results for "Gap"
Bio-Scripts
Needleman-Wunsch Algorithm in Perl
...ent algo (GOTHO 1982 mod) # usage statement die "usage: $0 \n" unless @ARGV == 4; # get sequences, matrix and gapcost from command line my ($seq1, $seq2, $smfile, $gapcost) = @ARGV; # scoring sc...2918 days ago
Installing Porechop on Ubuntu !
...oring_scheme SCORING_SCHEME Comma-delimited string of alignment scores: match, mismatch, gap open, gap extend (default: 3,-6,-5,-2)...2119 days ago
- ...tart: 1, end: 13}} ]; let configuration = { innerRadius: 250, outerRadius: 300, cornerRadius: 10, gap: 0.04, // in radian...
1537 days ago
Perl script for Smith-Waterman Algorithm
...= @ARGV; # scoring scheme my $MATCH = 1; # +1 for letters that match my $MISMATCH = -1; # -1 for letters that mismatch my $GAP = -1; # -1 for any gap # initialization my @matr...963 days ago
- ...2-pass [Integer] default = 0 -F Filter query sequence with SEG [String] default = F -G Cost to open a gap [Integer] default = 11 -E Cost to extend a gap [Integer] default = 1...
963 days ago
Genome Scaffolding and gap filling !
scaffolding with ARCS v1.0.3 (−c3, −l,4, −a,0.9, −z500, −m50, −20 000, −e30000, −s90). https://github.com/bcgsc/arcs Next, automated gap filling was performed using Sealer v2.0.1 (−L150, -P10, −k75-115 [step = 10]) https://github.com/bcgsc/abyss/tree/sealer-release633 days ago
