---
name: "rsem-gff3-to-gtf"
section: "1"
platform: "linux"
package: "rsem"
version: "1.3.3+dfsg-3+b1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/rsem-gff3-to-gtf"
---

# rsem-gff3-to-gtf(1)

Convert GFF3 files to GTF files.

## NAME

rsem-gff3-to-gtf - Convert GFF3 files to GTF files.

## DESCRIPTION

usage: rsem-gff3-to-gtf \[-h\] \[--make-genes-as-transcripts\]

- \[--RNA-patterns \<patterns\>\]

  \[--extract-sequences \<output.fa\>\] input\_GFF3\_file output\_GTF\_file

Convert GFF3 files to GTF files.

### positional arguments:

- input\_GFF3\_file

  Input GFF3 file.

- output\_GTF\_file

  Output GTF file.

### options:

- **-h**, **--help**

  show this help message and exit

- **--make-genes-as-transcripts**

  GFF3 file does not contain transcripts, make each gene as a transcript. (default: False)

- **--RNA-patterns** \<patterns\>

  Types of RNAs to be extracted, e.g. mRNA,rRNA (default: None)

- **--extract-sequences** \<output.fa\>

  If GFF3 file contains reference sequences, extract them to the specified file (default: None)