---
name: "gthgetseq"
section: "1"
platform: "linux"
package: "genomethreader"
version: "1.7.3+dfsg-10+b1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/gthgetseq"
---

# gthgetseq(1)

get FASTA sequences from GenomeThreader files

## NAME

gthgetseq - get FASTA sequences from GenomeThreader files

## SYNOPSIS

**gthgetseq** -getcdna \| -getprotein \| -getgenomic \[option ...\] \[file ...\]

## DESCRIPTION

Get FASTA sequences from GenomeThreader files containing intermediate results. The sequences are shown on stdout.

## OPTIONS

- **-getcdna**

  get cDNA/EST sequences default: no

- **-getcdnacomp**

  get complement of cDNA/EST sequences default: no

- **-getprotein**

  get protein sequences default: no

- **-getproteincomp**

  get complement of protein sequences default: no

- **-getgenomic**

  get genomic sequences default: no

- **-getgenomiccomp**

  get complement of genomic sequences default: no

- **-minalignmentscore**

  set the minimum alignment score for spliced alignments to be included into the set of spliced alignments default: 0.00

- **-maxalignmentscore**

  set the maximum alignment score for spliced alignments to be included into the set of spliced alignments default: 1.00

- **-mincoverage**

  set the minimum coverage for spliced alignments to be included into the set of spliced alignments default: 0.00

- **-maxcoverage**

  set the maximum coverage for spliced alignments to be included into the set of spliced alignments default: 9999.99

- **-gzip**

  gzip compressed input file(s) default: no

- **-bzip2**

  bzip2 compressed input file(s) default: no

- **-help**

  display help and exit

- **-version**

  display version information and exit