Eval: A software package for analysis of genome annotations

被引：44

作者：

Keibler, E ^{[1
]}

Brent, MR ^{[1
]}

机构：

[1] Washington Univ, Dept Comp Sci & Engn, St Louis, MO 63130 USA

来源：

BMC BIOINFORMATICS | 2003年 / 4卷 / 1期

关键词：

D O I：

10.1186/1471-2105-4-50

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Eval is a flexible tool for analyzing the performance of gene annotation systems. It provides summaries and graphical distributions for many descriptive statistics about any set of annotations, regardless of their source. It also compares sets of predictions to standard annotations and to one another. Input is in the standard Gene Transfer Format (GTF). Eval can be run interactively or via the command line, in which case output options include easily parsable tab-delimited files.

引用

页数：4

共 7 条

[1] Prediction of complete gene structures in human genomic DNA [J].

Burge, C ;

Karlin, S .

JOURNAL OF MOLECULAR BIOLOGY, 1997, 268 (01) :78-94

[2] Evaluation of gene structure prediction programs [J].

Burset, M ;

Guigo, R .

GENOMICS, 1996, 34 (03) :353-367

[3] Leveraging the mouse genome for gene prediction in human: From whole-genome shotgun reads to a global synteny map [J].

Flicek, P ;

Keibler, E ;

Hu, P ;

Korf, I ;

Brent, MR .

GENOME RESEARCH, 2003, 13 (01) :46-54

[4] An assessment of gene prediction accuracy in large DNA sequences [J].

Guigó, R ;

Agarwal, P ;

Abril, JF ;

Burset, M ;

Fickett, JW .

GENOME RESEARCH, 2000, 10 (10) :1631-1642

[5]

Korf I, 2001, Bioinformatics, V17 Suppl 1, pS140

[6] Genome annotation assessment in Drosophila melanogaster [J].

Reese, MG ;

Hartzell, G ;

Harris, NL ;

Ohler, U ;

Abril, JF ;

Lewis, SE .

GENOME RESEARCH, 2000, 10 (04) :483-501

[7] Initial sequencing and comparative analysis of the mouse genome [J].

Waterston, RH ;

Lindblad-Toh, K ;

Birney, E ;

Rogers, J ;

Abril, JF ;

Agarwal, P ;

Agarwala, R ;

Ainscough, R ;

Alexandersson, M ;

An, P ;

Antonarakis, SE ;

Attwood, J ;

Baertsch, R ;

Bailey, J ;

Barlow, K ;

Beck, S ;

Berry, E ;

Birren, B ;

Bloom, T ;

Bork, P ;

Botcherby, M ;

Bray, N ;

Brent, MR ;

Brown, DG ;

Brown, SD ;

Bult, C ;

Burton, J ;

Butler, J ;

Campbell, RD ;

Carninci, P ;

Cawley, S ;

Chiaromonte, F ;

Chinwalla, AT ;

Church, DM ;

Clamp, M ;

Clee, C ;

Collins, FS ;

Cook, LL ;

Copley, RR ;

Coulson, A ;

Couronne, O ;

Cuff, J ;

Curwen, V ;

Cutts, T ;

Daly, M ;

David, R ;

Davies, J ;

Delehaunty, KD ;

Deri, J ;

Dermitzakis, ET .

NATURE, 2002, 420 (6915) :520-562

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