Can Anyone Help Me In Finding The Script That Convert .Fastq To .Fasta Format

Question

[Syed Imtiyaz]

can anyone help me in finding the script that convert .fastq to .fasta format it would be help full if the script would be in perl scrpt or awk

[Michael Schubert]

http://hannonlab.cshl.edu/fastx_toolkit/

Answer 1

[Ttnguyen]

How about this?

awk 'BEGIN {id=1; seq=2;} NR==id{ sub(/^@/,">",$0); print $0; id += 4;} NR==seq{ print $0; seq += 4}' FASTQ_FILE

[Syed Imtiyaz]

THANK YOU IT WORKS !!!!!!!!

Answer 2

[Nicolas Rosewick]

check this out : http://stackoverflow.com/questions/1542306/converting-fastq-to-fasta-with-sed-awk

[Syed Imtiyaz]

THANK YOU!!!!!!!!!!!!!

Answer 3

[pmenzel]

Just did this with fastq_to_fasta from the fastx package (http://hannonlab.cshl.edu/fastx_toolkit/)

[Syed Imtiyaz]

Thank YOU !!!!!!!!!!!

Answer 4

[Wilber]

awk '/^@/{header=$0;getline;sequence=$0;gsub("@",">",header);printf "%sn%sn,header,sequence}' FAST-FILE

[Syed Imtiyaz]

THANK YOU!!!!!!!!!!!!!