BOL: Wire posts tagged with 'multifasta'

Wire post by BioStar

BioStar — Mon, 22 Jan 2024 03:25:18 -0600

Delete all the headers from multifasta file $ awk 'BEGIN {print ">"ARGV[1]};!/^>/{print}' test.fa #fasta #delete #header #multifasta

Wire post by BioStar

BioStar — Sat, 04 Jul 2020 22:06:29 -0500

Split the #multifasta to #singlefasta awk '$0 ~ "^>" { match($1, /^>([^:]+)/, id); filename=id[1]} {print >> filename".fa"}' input.fa

Wire post by Neel

Neel — Mon, 25 Nov 2019 22:26:37 -0600

Multifasta 2 singlefasta cat toy.fasta| awk '{ if (substr($0, 1, 1)==">" {filename=(substr($0,2) ".fa")} print $0 > filename }' #Split #fasta #multifasta

Wire post by Rahul Nayak

Rahul Nayak — Tue, 15 Jan 2019 04:12:56 -0600

Split a multi-FASTA file into individual FASTA files: awk '/^>/{s=++d".fa"} {print > s}' multi.fa #split #multifasta

Wire post by Jit

Jit — Thu, 09 Aug 2018 17:03:49 -0500

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

Wire post by Rahul Nayak

Rahul Nayak — Tue, 10 Apr 2018 04:06:14 -0500

#Split #multifasta $ cat hg18.fa | awk '{
if (substr($0, 1, 1)==">") {filename=(substr($0,2) ".fa")}
print $0 > filename
}'

Wire post by Shruti Paniwala

Shruti Paniwala — Wed, 26 Oct 2016 09:24:08 -0500

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