Sentence examples for alignment filtering from inspiring English sources

We also apply a probabilistic alignment filtering method to remove erroneous alignments of unrelated sequences, which are commonly observed in other genome alignment methods.

In addition we applied a strict alignment filtering to reduce sequence heterogeneity.

Alignment, filtering of reads, and calling of differentially methylated regions (DMRs) were performed using the MeDUSA pipeline [ 17].

We use a highly accurate orthology prediction procedure [ 17] followed by stringent alignment filtering to recover 1080 phylogenetically informative orthologous groups (OGs) that bear on metazoan phylogeny.

After alignment, filtering, and removal of CpG-prone sites, the data set could broadly be defined as composed of 2.97 million 0-fold degenerate sites, 0.34 million 4-fold degenerate sites, 7.94 million bp of intronic AR, and 58.19 million bp of non-AR intron sequence.

The computational pipeline for alignment, filtering, and clustering then followed an existing strategy (Shukla et al., 2013 ) including alignment to hg19 with SOAP2 and LAST, with the main exception being that clusters needed to only contain a single aligned read to be reported.

The criteria to choose the best pair of alignments for the ends are then dictated by the user, and can be based on best-combined score, uniqueness, as well as other post-alignment filtering criteria.

The amino acid sequences were aligned using T-COFFEE 7.81 [31], the ambiguous regions within these alignments filtered with GBLOCKS 0.91 b [32], and the filtered individual sequences concatenated.

Third, we transformed genomic alignments to transcriptomic alignments and filtered alignments that did not map to the transcript set using custom code.

The alignment filter we developed, "g-deNoise," anticipates the impact of intragenomic SNVs in multialignments.

Entrez and symbol identifiers were determined for each prey protein passing the alignment filter.