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#Multi-line fasta to #Single-line Fasta $ awk '/^>/ {if (NR>1) print ""; printf("%s\n", $0); next; } { printf("%s", $0) } END { printf("\n"); }' multi_line.fasta > single_line.fasta

Multi fasta to single fasta files $ perl -ne 'if (/^>(\S+)/) { close OUT; open OUT, ">$1.fasta" } print OUT' genome.fasta #Multi-fasta #fasta #multi #genome #files

Multiline to singleline covert. $ awk '/^>/ {printf("%s%s\t",(N>0?"\n":""),$0);N++;next;} {printf("%s",$0);} END {printf("\n");}' < input.fa #Multi #Single #Convert #awk

Multifasta to singleline fasta. $ awk '/^>/ {printf("\n%s\n",$0);next; } { printf("%s",$0);} END {printf("\n");}' < file.fa #Multi #Single #Fasta #Convert

#Convert a #multi-line #fasta to a #singleline #fasta $ awk '!/^>/ { printf "%s", $0; n = "\n" } /^>/ { print n $0; n = "" } END { printf "%s", n }' sample1.fa > sample1_singleline.fa

A #parallel implementation of #gzip for modern #multi-processor, #multi-core machines http://zlib.net/pigz/

#Extract a #sequence from #multi-fasta file: $ perl -ne 'if(/^>(\S+)/){$c=grep{/^$1$/}qw(id1 id2)}print if $c' fasta.file

Comparative Genomics Study of #Multi-Drug-Resistance #Mechanisms in the #Antibiotic-Resistant Streptococcus suis R61 Strain https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3180280/