21 skills found
vgvassilev / Cladclad -- automatic differentiation for C/C++
nextstrain / NextcladeViral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
ssolo / ALEAmalgamated likelihood estimation (ALE) is a probabilistic approach to exhaustively explore all reconciled gene trees that can be amalgamated as a combination of clades observed in a sample of gene trees. We implement the ALE approach in the context of a reconciliation model (cf. http://arxiv.org/abs/1211.4606 ), which allows for the duplication, transfer and loss of genes. We use ALE to efficiently approximate the sum of the joint likelihood over amalgamations and to find the reconciled gene tree that maximizes the joint likelihood among all such trees.
VerwimpEli / CLADImplementation of CLAD: A Continual Learning benchmark for Autonomous Driving. A continual classification and detectin track. Provides pure PyTorch, Avalanche and Detectron2 implementations.
DyogenIBENS / SCORPIOSSCORPiOs is a synteny-guided gene tree correction pipeline for clades that have undergone a whole-genome duplication event.
ecbush / XenoGICode for detecting genomic island insertions in clades of microbes.
nextstrain / Ncov Clades SchemaRenders SVG schema of SARS-CoV-2 clade as defined by Nextstrain
flu-crew / OctoFLUScript that labels phylogenetic clades based on the clade of the nearest neighbor using patristic distances determined from the tree.
NBISweden / TransposonPSITransposonPSI involves a PSI-blast search of a protein or nucleotide sequence against a set of profiles of proteins corresponding to major clades/families of transposon Open Reading Frames.
tomasbruna / Orthodb CladesGeneration of OrthoDB protein sets for gene prediction experiments
pjweggy / CLADESNo description available
sinatayebati / CladNet ML For AMA hybrid machine learning framework for clad characteristics prediction in metal additive manufacturing
eead-csic-compbio / Primers4cladesAutomated pipeline for the design of PCR primers for cross-species amplification of novel sequences
OdileMaliet / ClaDSfunctions to simulate and fit the ClaDS model
chulbioinfo / ConVarFinderThis analysis aims to detect convergent variants among species from polyphyletic clades at amino acid, codon, and nucleotide levels
abichat / YatahYet Another TAxonomy Handler.
noahsub / AspenlogThe Application of Specified Environmental Load Generator (Aspenlog 2020) is an online desktop application designed to calculate environmental loads (wind, seismic, and snow) on building cladding components. These calculations are based on Chapter 4 of the National Building Code of Canada (NBCC) 2020.
nextstrain / Flu FrequenciesFlu clade and mutation frequencies
grimmmyshini / Chef Fp ExamplesExamples for Clad's floating point error estimation framework
neherlab / Flu CladesNo description available
