Sentence examples for based on read mate-pairing from inspiring English sources

Scaffolds were formed using the Bambus software [ 98] based on read mate-pairing.

Sequences were assembled using the Phusion assembler [ 18], based on read pair information.

Chromosomal rearrangements were investigated through 4 independent analyses based on read depth, copy number variation, pair-end reads and PCR.

Plasmids were putatively identified based on read-pairs supporting circularization, gene content (e.g. plasmid replication genes) and read coverage.

In the last step, the contigs are ordered into scaffolds based on mate pair reads (Pop, 2009).

Our approach based on mate-pair reads resulted in the assembly of a similar number of scaffolds (33), which was further reduced to only two by manual editing.

Three large scaffolds (SC_2384, SC_2496 and SC_1888) were obtained based on contig mate pair information and used in this study.

Introducing additional filtering based on read-mapping statistics further improved specificity without reducing sensitivity, in particular with filters based on the fraction of reads that were mate-pair rescued.

For each mate pair library, we estimate the mean insert size gmean and the insert size range [gmin, gmax] and using these values we compute minimum and maximum suggested distances between the contigs based on each mate pair.

The results reported here are based on using all mate pairs for which at least one of the two reads has a length of 40 bp or more.

Briefly, the combined read set assemblies for each BAC were refined by contig merging and scaffolding based on clone-end mate pair constraints.