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Gff2ps specifications


Unique identifier OMICS_17140
Name Gff2ps
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data An annotated feature of a genomic sequence.
Input format GFF
Output format PostScript
Operating system Unix/Linux
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Maintained Yes




No version available



Publication for Gff2ps

Gff2ps citations


Relationship between Differential Hepatic microRNA Expression and Decreased Hepatic Cytochrome P450 3A Activity in Cirrhosis

PMCID: 3772944
PMID: 24058572
DOI: 10.1371/journal.pone.0074471

[…] sites predicted by mirna were formatted into a general feature format (gff) file using the binding co-ordinates with respect to the utr regions, to visualize the location of the binding sites using gff2ps tool []., hepatic cyp3a activity in cirrhotic liver samples was significantly lower compared to normal liver tissue by 1.7-fold (0.28 ± 0.06 vs. 0.47 ± 0.07ml* min-1*mg protein-1 (mean ± sem), […]


Patterns of Sequence Divergence and Evolution of the S1 Orthologous Regions between Asian and African Cultivated Rice Species

PMCID: 3053390
PMID: 21423767
DOI: 10.1371/journal.pone.0017726

[…] evaluated by alignment with rice est and full-length cdna (flcdna) public sequences . detailed analysis was performed with the emboss analysis software and the physical map diagram was drawn using gff2ps software . putative transposable elements (tes) were first identified and annotated by repeatmasker searches ( against local databases of rice tes downloaded […]


The Pinus taeda genome is characterized by diverse and highly diverged repetitive sequences

PMCID: 2996948
PMID: 20609256
DOI: 10.1186/1471-2164-11-420

[…] groups: 70-84%, 85-97% and 98-100%. the genomic sampling was conducted 10 times and averaged., to simultaneously visualize all elements that were identified in the bac assemblies, the program gff2ps was used []. the following data were formatted into gff files and used to create figure and additional file , figure s1: maker dicot and monocot runs on masked and unmasked sequence; simple […]


Centromere sequence and dynamics in Dictyostelium discoideum

PMCID: 2665215
PMID: 19179372
DOI: 10.1093/nar/gkp017

[…] trnascan () was used to search for trna genes. repeat positions were transformed to a gff file format for each centromere. a graphical representation of the centromeres was obtained using gff2ps () on these gff-files., from the blast analysis, we identified 34 full-length or nearly full-length dirs elements on all centromeres. these elements were aligned using clustalx (). […]


Conserved chromosomal clustering of genes governed by chromatin regulators in Drosophila

PMCID: 2592712
PMID: 18783608
DOI: 10.1186/gb-2008-9-9-r134

[…] for the trx antibody. we thank f casares and m rehmsmeier for insightful discussions, and a carbonell for interesting suggestions. we are grateful to jf abril for helpful assistance with the program gff2ps, a coppe for introducing slight modifications in the reef program to identify small clusters and b lenhard for providing information about the genomic regulatory blocks in insects. we also […]


Multiple non collinear TF map alignments of promoter regions

PMCID: 1878506
PMID: 17456238
DOI: 10.1186/1471-2105-8-138

[…] includes the score and the length of the optimal mma, and the matches in the input tf-maps (see figure for an example). a graphical representation of the mma is also displayed using the program gff2ps []., the optimal mma of a set of tf-maps is obviously dependant on the values of the α, λ, μ, γ and c parameters. in addition, the optimal parameter configuration is likely to depend […]

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Gff2ps institution(s)
Grup de Recerca en Informatica Medica, Institut Municipal d’Investigacio Medica (IMIM), Universitat Pompeu Fabra (UPF), Barcelona, Spain
Gff2ps funding source(s)
Supported by a grant from Plan Nacional de I+D, BIO98-0443-C02-01, and by a fellowship from the Instituto de Salud Carlos III, 99/9345.

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