Sentence examples for for each branch in the reference from inspiring English sources

For each branch in the reference tree, we extract the set of query sequences that have been placed into that branch and infer a tree on them using RAxML (Stamatakis, 2006 ).

Thereafter, we apply PTP to each query sequence (one for each branch of the reference phylogeny) tree to delimit species.

For each branch, a reference sequence from each gained OG was chosen randomly and functionally annotated using Blast2GO version.

In this case, DyeVC accesses the tip of the branches (fast operation, as each branch has a reference to its tip) and traverses its transitive closure for plotting all previous commits (also fast, because each commit has a reference to its parents).

In case of OMA pairwise groups, the branch of the reference gene was not considered.

In Supplementary Figure S4, the variant and repeat branch rates for the reference graph, simulated reads and real NA12878 data is shown.

We measure the ratio of branching fractions RD=B D0→π−e+νe)/B(D0→K−π+)=0.0713±0.0017stand±0.0024syst., and use the present world average for B D0→K−π+) to obtain B D0→π−e+νe)=(2.770±0.068stat.±0.092syst.±0.037ext).×10−3 where the third error accounts for the uncertainty on the branching fraction for the reference channel.

For the first data set we allowed multifurcations in the reference phylogeny for the positions of rice and bamboo because the corresponding internal branches are short and not very well supported.

Therefore, we need to compute P t times for m branches in the phylogeny and l foreground branches; this yields branches when using a single foreground branch.

The ω ratio for each branch was estimated using branch specific codon substitution models in PAML.

For each identified branch, the S1 leaves in the branch form a testing set.