• SnapPea

  • Referenced in 163 articles [sw06873]
  • fact admit hyperbolic structures, to remove duplicates from the lists and to compute the various...
  • Notung

  • Referenced in 13 articles [sw08917]
  • NOTUNG: A Program for Dating Gene Duplications and Optimizing Gene Family Tree. Large scale gene ... duplication is a major force driving the evolution of genetic functional innovation. Whole genome duplications ... trees to analyze the history of gene duplication and estimate duplication times provides a powerful ... provides a basic building block for inferring duplication dates from gene trees automatically...
  • SCIRun

  • Referenced in 22 articles [sw06756]
  • SCIRun are flexible enough to enable duplication of networks and creation of new modules. Many...
  • STRIP

  • Referenced in 15 articles [sw04650]
  • main characteristics: it deals with the duplication of formulae during proof-search from a fine...
  • PANTHER

  • Referenced in 15 articles [sw22973]
  • evolutionary events, such as speciation and gene duplication. Subfamilies are still curated and used...
  • MSOAR

  • Referenced in 7 articles [sw29658]
  • genome rearrangement. - MSOAR 2.0: Incorporating tandem duplications into ortholog assignment based on genome rearrangement. Background ... terms of genome rearrangement and gene duplication events. It assumes that a gene duplication event ... inserts a duplicated gene into the genome of interest at a random location ... random duplication model). However, in practice, biologists believe that genes are often duplicated by tandem...
  • Genetree

  • Referenced in 13 articles [sw01308]
  • display the location and number of gene duplications andlosses, and search for optimal species trees...
  • Sacado

  • Referenced in 13 articles [sw06602]
  • approaches result in a large amount of duplicate computation, particularly for large expression trees, degrading...
  • iRO-3wPseKNC

  • Referenced in 13 articles [sw27669]
  • very powerful for predicting the entire DNA duplication origins. Availability and implementation: The web-server...
  • STAR

  • Referenced in 9 articles [sw35644]
  • Tandem Repeat (ETR) comes from the tandem duplication of the motif and an ATR derives ... then be encoded as a number of duplications of the motif together with a list...
  • Koka

  • Referenced in 11 articles [sw19068]
  • support polymorphic effects through row-polymorphism using duplicate labels. Moreover, we show that our effects...
  • Polyglot

  • Referenced in 10 articles [sw08834]
  • languages similar to Java, while avoiding code duplication. The Polyglot framework is useful for domain...
  • iGTP

  • Referenced in 5 articles [sw23050]
  • evolutionary events such as gene duplication and loss, incomplete lineage sorting (deep coalescence), and horizontal ... speed up species tree inference under the duplication, duplication-loss, and deep coalescence reconciliation costs ... genes from hundreds of taxa using the duplication, duplication-loss, and deep coalescence reconciliation costs...
  • Beanplot

  • Referenced in 9 articles [sw10545]
  • data, such as bimodal distributions and duplicate measurements, are easily spotted in a beanplot...
  • Eisbach

  • Referenced in 8 articles [sw13077]
  • proof procedures. This can lead to more duplication in large proofs than is acceptable...
  • iROS-gPseKNC

  • Referenced in 8 articles [sw25363]
  • strategy against genetics diseases, the knowledge of duplication origin sites in DNA is indispensible. With...
  • PAW

  • Referenced in 8 articles [sw32834]
  • analysis and display procedures that would be duplicated needlessly by individual programmers, to supply...
  • SimPhy

  • Referenced in 5 articles [sw17058]
  • families evolving under incomplete lineage sorting, gene duplication and loss, horizontal gene transfer—all three ... characterize the systematic overestimation of the duplication time when using standard reconciliation methods. SimPhy...
  • MGTP

  • Referenced in 7 articles [sw09701]
  • clauses, a proof simplification method to eliminate duplicated subproofs, and MM-MGTP for minimal model...
  • ecceTERA

  • Referenced in 6 articles [sw24891]
  • parsimony reconciliation algorithm, which accounts for gene duplication, loss and transfer (DTL) as well...