• anNET

  • Referenced in 2 articles [sw35331]
  • reaction to a complete genome-wide network reconstruction including compartments. anNET can (i) test quantitative ... active regulation in the metabolic reaction network, and (iv) help in localizing errors in data...
  • ARACNe-AP

  • Referenced in 3 articles [sw34267]
  • mutual information. The accurate reconstruction of gene regulatory networks from large scale molecular profile datasets ... Biology. The Algorithm for the Reconstruction of Accurate Cellular Networks (ARACNe) represents...
  • F2c2

  • Referenced in 3 articles [sw17352]
  • detecting dependencies between reaction fluxes of metabolic networks at steady-state. On the one hand ... help in the curation of reconstructed metabolic networks by verifying whether the coupling between reactions...
  • NetQuest

  • Referenced in 5 articles [sw13969]
  • resource constraints. We then apply network inference techniques to reconstruct the properties of interest based ... through these measurements. By casting network measurement in a general Bayesian decision theoretic framework...
  • SuBliMinaL

  • Referenced in 1 article [sw27602]
  • Toolbox: automating steps in the reconstruction of metabolic networks ... generation and use of metabolic network reconstructions has increased over recent years. The development ... shown that steps undertaken in reconstructing such metabolic networks are amenable to automation. The SuBliMinaL...
  • Par@Graph

  • Referenced in 1 article [sw21964]
  • software toolbox to reconstruct and analyze complex climate networks having a large number of nodes ... performance of the toolbox is illustrated through networks derived from sea surface height (SSH) data ... Xeon E5-4650 processors to reconstruct a climate network including the preprocessing and the correlation ... model results, by enabling fast network reconstruct from the calculation of statistical similarities between climate...
  • VENLO

  • Referenced in 2 articles [sw18647]
  • become possible to reconstruct the evolution of specific biological networks for several species ... data resulting from these reconstructions consists of ancestral networks and gene trees. To analyze such...
  • PyPanda

  • Referenced in 1 article [sw14828]
  • Python Package for Gene Regulatory Network Reconstruction. PANDA (Passing Attributes between Networks for Data Assimilation...
  • VGAER

  • Referenced in 1 article [sw41917]
  • VGAER: Graph Neural Network Reconstruction based Community Detection. Community detection is a fundamental and important ... information with network features, this paper proposes a Variational Graph AutoEncoder Reconstruction based community detection ... clearly depicted the stable performance and powerful network modularity ability of VGAER. Our codes...
  • ddepn

  • Referenced in 1 article [sw14723]
  • that implements our recent approach on network reconstruction from longitudinal data generated after external perturbation...
  • TDAN

  • Referenced in 1 article [sw42567]
  • TDAN: Temporally Deformable Alignment Network for Video Super-Resolution. Video super-resolution (VSR) aims ... which also will be propagated into the reconstructed HR video frame. To overcome the limitation ... paper, we propose a temporal deformable alignment network (TDAN) to adaptively align the reference frame ... predict the HR video frame, a reconstruction network taking aligned frames and the reference frame...
  • tFCA

  • Referenced in 1 article [sw17350]
  • become a useful tool for aiding metabolic reconstructions and guiding genetic manipulations. Originally ... introduced for constraint-based models of metabolic networks that are based on the steady-state ... selection of genome-scale metabolic network reconstructions, we discuss both theoretically and practically, how thermodynamic...
  • AutoNet

  • Referenced in 1 article [sw30811]
  • Alternative splicing regulatory network reconstruction from exon array data. Pre-mRNA alternative splicing (AS) allows ... existence of an alternative splicing regulatory network (SRN). The SRN contains a list of gene ... play key roles in human disease, a reconstruction of human SRN could be used...
  • rBioNet

  • Referenced in 3 articles [sw25730]
  • COBRA toolbox extension for reconstructing high-quality biochemical networks. MOTIVATION: Genome-scale metabolic networks ... exists that ensures quality control during the reconstruction process. RESULTS: Here, we present a COBRA ... enabling the construction of publication-level biochemical networks while enforcing necessary quality control measures. rBioNet ... intuitive user interface facilitating the reconstruction process for novices and experts. AVAILABILITY: The rBioNet...
  • MEMo

  • Referenced in 1 article [sw35921]
  • sets of elementary flux modes. Metabolic network reconstructions are widely used in computational systems biology ... correspond to minimal functional units in the network. Already for medium-sized networks...
  • nlnet

  • Referenced in 1 article [sw35680]
  • based K-profiles clustering, non-linear network reconstruction, non-linear hierarchical clustering, and variable selection...
  • EasyMesh

  • Referenced in 1 article [sw34410]
  • reconstruction, ensuring that the reconstruction network focuses on generating vivid 3D meshes with accurate viewpoint...
  • MI-GRAAL

  • Referenced in 3 articles [sw08318]
  • alignment scores for PPI networks of different herpes viruses, we reconstruct their phylogenetic relationship. This ... phylogeny is exactly reconstructed from purely topological alignments of PPI networks...
  • CodedRecon

  • Referenced in 1 article [sw39048]
  • deep learning based framework for video reconstruction from coded exposure imaging techniques ... deep-neural network module that learns to reconstruct the video sequence from ... input coded exposure measurement. The reconstruction neural network is fully-convolutional and incorporates a spatially ... pixel-wise coded exposure techniques and reconstruct a video sequence with 16 frames per input...
  • MADE

  • Referenced in 12 articles [sw36209]
  • introduce a simple modification for autoencoder neural networks that yields powerful generative models. Our method ... respect autoregressive constraints: each input is reconstructed only from previous inputs in a given ordering ... probability. We can also train a single network that can decompose the joint probability...