gff2sequence statistics

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gff2sequence specifications

Information


Unique identifier OMICS_22136
Name gff2sequence
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Input data a GFF (or GTF) annotation file and the relevant multifasta genome information.
Input format GFF+FASTA,GTF+FASTA
Output data Some nucleotide sequences of many genic and intergenic features.
Output format FASTA, GTF, GFF
Operating system Unix/Linux
Programming languages C++
License GNU General Public License version 2.0
Computer skills Medium
Version 0.2
Stability Stable
Requirements
Qt library
Maintained Yes

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Maintainer


  • person_outline Salvatore Camiolo <>

Publication for gff2sequence

gff2sequence in publications

 (2)
PMCID: 5499143
PMID: 28533334
DOI: 10.1534/g3.117.040626

[…] these species are used when we describe interspecies comparisons., coding sequences (cds), mature mrna sequences, and protein sequences were generated by computing the annotation information using gff2sequence (). only cds beginning with a valid start codon (atg), ending with a canonical stop codon (tga, taa, or tag), and featuring full nucleotide triplets (e.g., the sequence length […]

PMCID: 4675714
PMID: 26546225
DOI: 10.1093/dnares/dsv027

[…] (pv), solanum lycopersicum (sl), solanum tuberosum (st), thellungiella halophila (th) and vitis vinifera (vv)] and 2 mosses [physcomitrella patens (pp) and selaginella moellendorffii (sm)]., we used gff2sequence to identify coding sequences, proteins, introns and intergenic sequences. coding sequences featuring non-canonical bases (other than a, c, g or t), missing stop codons or incomplete […]


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gff2sequence institution(s)
Dipartimento di Agraria, Università degli Studi di Sassari, Sassari, Italy

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