BOL

Results for "multifasta"

Top-level pages

• • Rahul Nayak@rahul

  

  Bioinformatics OneLiner

  ...*.fastq.gz | paste - - - - | cut -f 2 | tr -d '\n' | wc -c To split multifasta file into many fasta files:...}' myfile.txt To sample only 200 first bases from all sequences in a multifasta file (e.g. from assembly scaf...

  2216 days ago

Wire posts

• • Shruti Paniwala@shruti

  

  Extract a fasta sequence from multifasta file: samtools faidx multitest.fa and then samtools faidx multitest.fa fasta_id > out.fa #Samtools #Fasta #Extract #Multifasta

  2746 days ago

• • Jit@jit.aber

  

  #Remove a #sequence by id from multifasta: cat vaga.fa | awk '{if (substr($0,1) == ">scaffold_1 1087316 bp") censor=1; else if (substr($0,1,1) == ">") censor=0; if (censor==0) print $0}' > fixed.fasta

  2332 days ago

• +7 more Wire posts

Bio-Scripts

• • Bulbul@bulbul

  

  Perl script to remove the duplicate sequences from multifasta file

  use strict; use Bio::SeqIO; my %unique; my $file = "myseqs.fa"; my $seqio = Bio::SeqIO->new(-file => $file, -format => "fasta"); my $outseq = Bio::SeqIO->new(-f...

  2688 days ago

• • Jit@jit.aber

  

  Extract fasta sequence from a multifasta file with coordinates

  #!/usr/bin/perl use Bio::DB::Fasta; #USAGE perl extractFASTAwithSIZE.pl finalSample_filtered.fa 0 1000 > aaaaaa.fa my $fastaFile = shift; my $querySizeST = shi...

  2530 days ago

• +17 more Bio-Scripts

Tags

• • Shruti Paniwala@shruti

  

  Extract a fasta sequence from multifasta file: samtools faidx multitest.fa and then samtools faidx multitest.fa fasta_id > out.fa #Samtools #Fasta #Extract #Multifasta

  Tags: Samtools, Fasta, Extract, Multifasta

  2746 days ago

• • Jit@jit.aber

  

  perl -pe '/^>/ ? print "\n" : chomp' LR.fasta | tail -n +2 > out.fasta #singleLine #Multifasta #Multi2Single

  Tags: singleLine, Multifasta, Multi2Single

  2094 days ago

• +6 more Tags