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|Interface||Command line interface|
|Restrictions to use||None|
|Operating system||Unix/Linux, Mac OS|
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Publication for M-pick
Toward accurate molecular identification of species in complex environmental samples: testing the performance of sequence filtering and clustering methods
[…] erence sequences known a priori) use a hierarchical or greedy heuristic approach (Sun et al. ), although a few new developments use alternative statistical or modularity-based approaches (e.g., CROP, M-Pick, SWARM, Table). In general, hierarchical algorithms compute sequence divergence between all pairs of sequences – which is very computationally demanding – producing a distance matrix before gen […]
The intellectual disability protein RAB39B selectively regulates GluA2 trafficking to determine synaptic AMPAR composition
[…] immunofluorescence at 14 DIV. We found an increase in PICK1, GluA2 and GluA3 levels in the cell body of shRab39b-treated neurons as compared with the neurons treated with the control shRNA (mean±s.e.m., PICK1 shScramble n=21: 2.98±0.28, shRab39b n=21: 4.25±0.35; t-test P=0.009; GluA2 shScramble n=9: 0.60±0.05, shRab39b n=5: 0.88±0.05; t-test P=0.003; GluA3 shScramble n=6: 0.42±0.03, shRab39b n=7: […]
Ecological Consistency of SSU rRNA Based Operational Taxonomic Units at a Global Scale
[…] , >80% of all non-singleton OTUs at different clustering thresholds were monophyletic ().In general, conceptually more sophisticated algorithms to demarcate OTUs such as ecotype simulation , CROP or M-Pick may be suited for focused problems, but arguably suffer from throughput problems due to high computational demands (we were not able to execute any of them on our set of one million sequences) […]
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