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USEARCH
features home page.
Database
search
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Speed
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Sensitivity
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Benchmark
click
for details
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Nucleotide
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30-200 x BLASTN
70
x MEGABLAST
|
100%
x
BLASTN (all %ids)
150% x MEGABLAST (high %id)
200-500% x MEGABLAST (med.-low %id)
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RFAM
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Protein
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20-250 x BLASTP
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100%
x BLASTP (≥50%id)
86% x BLASTP (35-50%id)
29% x BLASTP (25-35%id)
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PDB90-R
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Translated
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20-250 x BLASTX
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99%
x BLASTX (≥50%id)
84% x BLASTX (35-50%id)
25% x BLASTX (25-35%id)
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PDB90-X
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Clustering
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Speed
|
Sensitivity
|
Benchmark
click
for details
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Nucleotide
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30-50 x
CD-HIT
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110-160% x
CD-HIT
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COSTELLO
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Protein
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0.8-70 x
CD-HIT
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115-135% x
CD-HIT
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ORTHO
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454
reads
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30
x CD-HIT-454
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110%
x CD-HIT-454
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454READS
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OTUs
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(Benchmarks
are controversial, see Discussion).
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MOCK
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Comments
on comparing CD-HIT and the UCLUST algorithm in USEARCH.
Chimera
filtering
See the UCHIME
paper for benchmark comparisons to ChimeraSlayer and Perseus.
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