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Due to the substantial overlap of tRNAs and Ty/LTRs, we treated these features as one group so that only half of tRNAs and Ty/LTRs were lost when we removed clusters of features.
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We removed clusters composed of less than 10 ESTs, leading to a set of 3,599 UniGene clusters.
First, vectors of the removed cluster are re-partitioned to their nearby clusters.
The time complexity depends on the size of the removed cluster.
We also chose to remove clusters containing only different strains of E. coli (~110 clusters, or 7%), as the high number of closely related strains would cause large and artificially uniform clusters.
Please note that we removed predicted clusters of two or less proteins.
Specifically, all taxa except C. velia, red and green alga, and an outgroup were removed from clusters of homologous sequences prior to the phylogenetic reconstructions, which likely exacerbated the problem outlined above.
Second on the agenda should be removing small clusters of settlements occupied by ideological activist settlers in places such as Nablus and Hebron that are troublesome and heavily tax Israel's security forces.
To remove small clusters of unclassified points, or singular points ("salt & pepper" effect), we sieved and clumped (ENVI 4.8 user's guide, 655 657) the classification through a 3 × 3 kernel.
In Taksim Square, a congested transport hub smelling of diesel exhaust and roasting kebabs, he mentioned in passing that Prime Minister Recep Tayyip Erdogan was pushing ahead with plans to remove a cluster of sycamores and build a mosque and a mall in their place.
If we remove this cluster of points with the acute CD4+ T cell level below 3.3% of baseline (the acute survival threshold in the grey rectangle) the positive correlation loses significance (Spearman r = 0.346, p = 0.1743).
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com