---
name: "bioawk"
section: "1"
platform: "linux"
package: "bioawk"
version: "1.0-5"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/bioawk"
---

# bioawk(1)

extension of awk for biological sequence analysis

## NAME

bioawk - extension of awk for biological sequence analysis

## DESCRIPTION

### bed:

-

  1:chrom 2:start 3:end 4:name 5:score 6:strand 7:thickstart 8:thickend 9:rgb 10:blockcount 11:blocksizes 12:blockstarts

### sam:

-

  1:qname 2:flag 3:rname 4:pos 5:mapq 6:cigar 7:rnext 8:pnext 9:tlen 10:seq 11:qual

### vcf:

-

  1:chrom 2:pos 3:id 4:ref 5:alt 6:qual 7:filter 8:info

### gff:

-

  1:seqname 2:source 3:feature 4:start 5:end 6:score 7:filter 8:strand 9:group 10:attribute

### fastx:

-

  1:name 2:seq 3:qual 4:comment

## AUTHOR

 This manpage was written by Nilesh Patra for the Debian distribution and\
  can be used for any other usage of the program.