gff3 to gtf conversion

I need to convert .gff3 to .gtf file. Any suggestions on how to do it? I tried gffread and got an empty output but I think it works only with gff files.

sequencing assembly

• 4,584 views • link

updated 7.8 years ago by Dattatray Mongad

• written 7.8 years ago by sonajith •

1 answer

See previous posts here 45791

• 1 views • link

written 7.8 years ago by Dattatray Mongad

More posts like this

gffread outputs empty gtf file
written 2.9 years ago by sumitra.20 •

Hi, I've been trying to convert my prokka output in gff format to gtf format to be able to use for my hisat-stringtie analysis. However, …
Converting gff3 to gtf file format?
written 4.4 years ago by melatoninixo •

Hi all, I am trying to convert a gff3 file obtained from ensembl to gtf but to no avail. I have tried to convert my …
genbank to GTF in galaxy
written 4.6 years ago by basuanubhav •

Hi all, I am working on galaxy and have a genome file in genbank format. To use featurecounts for my RNAseq, I need to convert …
Convert .gbff (gene bank flat format) to gff3, gtf
written 5.9 years ago by alex •

As an example, I'm working with a reference genome for pineapple and need a GTF and GFF file. This is the assembly ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/902/162/155/GCA_902162155.2_F153.v0709/ All that's …
How to run HISAT2 / Stringtie / Ballgown analysis starting with gff file
written 9.7 years ago by al-ash

Hi! I'm trying to extract exon and splice site information from the gff file (which I downloaded from NCBI: ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCF_000214255.1_Bter_1.0/GCF_000214255.1_Bter_1.0_genomic.gff.gz) using the python scripts provided …
gff3 to gtf
written 10.2 years ago by luanabarbos •

Hi guys, I need to convert a gff3 file to gtf to use at tophat. I tried to convert using the gffread ( came with …
How to convert a gff3 to gtf?
written 10.3 years ago by f.fassihian •

Hi all, I got a gff3 hsa miRNA annotation file from mirBase. I need to convert it to gtf . I tried to do that …
GFF3 to GTF
written 10.5 years ago by silas008

I'm tryning to convert a c elegans mirBase gff3 file to gtf file with gffread (by cufflinks) but my gtf output is blank. The code: …
Converter for GFF file downloaded from NCBI to GTF
written 10.5 years ago by mmacd •

Hi all, I have been looking at different gff3 to gtf converters, but cannot find a good one that works well for gff3 files downloaded …
Using ensembl genomes and gtf conversion
written 10.6 years ago by as9309 •

Hi, I'm trying to align my RNA-seq data to an E coli reference genome that I downloaded from Ensembl bacteria but I'm getting stuck because …