Results for "bioawk"
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...STDIN. [-o OUTFILE] = FASTA output file. default is STDOUT. Bioawk Another option to convert fastq to fasta format using bioawk bioawk -c fastx '{print ">...2295 days ago
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Bio-Scripts
- ...| awk '{if(NR%4==1) {printf(">%s\n",substr($0,2));} else if(NR%4==2) print;}' > file.fa #seqtk seqtk seq -a input.fastq > output.fasta #Bioawk bioawk -c fastx '{print ">"$name"\n"...
840 days ago
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- There are several ways you can convert fastq to fasta sequences. Some methods are listed below. Using SED sed can be used to selectively print the desired lines from a file, so if you print the first and 2rd line of every 4 lines, you get the sequence header and sequence need...
Tags: fasta, fastq, convert, sed, awk, seqtk, bioawk, fastx, Emboss, fastq2fasta
2295 days ago
Comments
Comment on "Most Commonly used Awk by Bioinformatician"
I love awk but recommend you to try bioawk . Bioawk is a modified version of awk which will parse some common sequence formats. https://github.com/lh3/bioawk3671 days ago
Comment on "Most Commonly used Awk by Bioinformatician"
There is BioAwk, specially designed for bioinformatician by ialbert. .... https://github.com/ialbert/bioawk-tools Njoy3898 days ago
