Table 3.

Gene prediction sensitivity of BRAKER2 at the gene and exon levels

Gene SnExon Sn
SpeciesAllReliableAllReliable% Reliable genes
A. thaliana70.278.881.587.983.5
C. elegans49.857.875.781.081.1
D. melanogaster59.561.671.974.493.2
P. trichocarpa69.376.486.290.484.6
M. truncatula48.363.282.790.069.6
S. lycopersicum40.768.078.592.154.4
B. terrestris45.756.774.679.575.1
R. prolixus13.245.561.480.226.4
P. tepidariorum24.640.267.979.950.6
T. nigroviridis10.467.760.689.511.2
D. rerio39.150.375.686.370.8
X. tropicalis38.946.375.380.074.8
Gene SnExon Sn
SpeciesAllReliableAllReliable% Reliable genes
A. thaliana70.278.881.587.983.5
C. elegans49.857.875.781.081.1
D. melanogaster59.561.671.974.493.2
P. trichocarpa69.376.486.290.484.6
M. truncatula48.363.282.790.069.6
S. lycopersicum40.768.078.592.154.4
B. terrestris45.756.774.679.575.1
R. prolixus13.245.561.480.226.4
P. tepidariorum24.640.267.979.950.6
T. nigroviridis10.467.760.689.511.2
D. rerio39.150.375.686.370.8
X. tropicalis38.946.375.380.074.8

The test sets were (All) all annotated multi-exon genes and (Reliable) all annotated complete multi-exon genes having all introns supported by mapped RNA-seq reads, the ones sampled by VARUS (36).

Table 3.

Gene prediction sensitivity of BRAKER2 at the gene and exon levels

Gene SnExon Sn
SpeciesAllReliableAllReliable% Reliable genes
A. thaliana70.278.881.587.983.5
C. elegans49.857.875.781.081.1
D. melanogaster59.561.671.974.493.2
P. trichocarpa69.376.486.290.484.6
M. truncatula48.363.282.790.069.6
S. lycopersicum40.768.078.592.154.4
B. terrestris45.756.774.679.575.1
R. prolixus13.245.561.480.226.4
P. tepidariorum24.640.267.979.950.6
T. nigroviridis10.467.760.689.511.2
D. rerio39.150.375.686.370.8
X. tropicalis38.946.375.380.074.8
Gene SnExon Sn
SpeciesAllReliableAllReliable% Reliable genes
A. thaliana70.278.881.587.983.5
C. elegans49.857.875.781.081.1
D. melanogaster59.561.671.974.493.2
P. trichocarpa69.376.486.290.484.6
M. truncatula48.363.282.790.069.6
S. lycopersicum40.768.078.592.154.4
B. terrestris45.756.774.679.575.1
R. prolixus13.245.561.480.226.4
P. tepidariorum24.640.267.979.950.6
T. nigroviridis10.467.760.689.511.2
D. rerio39.150.375.686.370.8
X. tropicalis38.946.375.380.074.8

The test sets were (All) all annotated multi-exon genes and (Reliable) all annotated complete multi-exon genes having all introns supported by mapped RNA-seq reads, the ones sampled by VARUS (36).

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