maximum-likelihood

There are 2 repositories under maximum-likelihood topic.

lifelines
CamDavidsonPilon / lifelines
Survival analysis in Python
cox-regression data-science maximum-likelihood python reliability-analysis statistics survival-analysis
Language:Python 2376
3dem / relion
Image-processing software for cryo-electron microscopy
microscopy cryo-em hpc cuda image-processing biomolecular-dynamics molecular-biology molecular-structures atomistic-models ctf high-performance-computing graphics-programming gui microscope optimization-algorithms maximum-likelihood likelihood relion regularization nvidia
Language:C++ 456
amkozlov / raxml-ng
RAxML Next Generation: faster, easier-to-use and more flexible
bioinformatics maximum-likelihood mpi phylogenetics pthreads
Language:C++ 397
Cibiv / IQ-TREE
Efficient phylogenomic software by maximum likelihood
iq-tree maximum-likelihood mixture-model model-selection phylogenetics phylogenomics ultrafast-bootstrap
Language:C++ 187
stan-dev / cmdstanr
CmdStanR: the R interface to CmdStan
r-package stan bayesian mcmc variational-inference maximum-likelihood markov-chain-monte-carlo bayes
Language:R 144
cogent3 / cogent3
Comparative Genomics Toolkit 3
bioinformatics biological-sequence-analysis biology biopython data-science evolution genomics markov-chain maximum-likelihood molecular-evolution non-stationary parallel phylogenetic-trees phylogenetics pycogent python sequence-alignment signal-processing statistics
Language:Python 102
vinuesa / get_phylomarkers
A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concatenation approaches
bash clock-hypothesis codon-alignment core-genome genomics markers maximum-likelihood microbiology orthologues perl phylogenetic-trees phylogenetics phylogenomics phylogenomics-pipeline pipeline population-genetics r recombination species-delimitation species-trees
Language:Perl 53
jamiemcg / BUSCO_phylogenomics
BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins
bayesian bioinformatics evolution genomics maximum-likelihood phylogenetics phylogenomics
Language:Python 51
grenaud / deML
Maximum likelihood demultiplexing
c-plus-plus demultiplexing maximum-likelihood sequencing
Language:C++ 46
odubno / gauss-naive-bayes
Gauss Naive Bayes in Python From Scratch.
bayes naive-bayes-classifier normal-naive-bayes naive-bayes naive-bayes-tutorial naive-bayes-algorithm naive-bayes-implementation naive-bayes-python from-scratch iris-dataset gaussian-distribution normal-distribution classification-model bayes-classifier bayes-classification python maximum-likelihood maximum-likelihood-estimation bayesian posterior-probability
Language:Python 45
r-spatial / spatialreg
spatialreg: spatial models estimation and testing
bayesian impacts maximum-likelihood spatial-dependence spatial-econometrics spatial-regression
Language:R 45
jkirkby3 / pymle
Maximum Likelihood estimation and Simulation for Stochastic Differential Equations (Diffusions)
diffusion sde mle mle-estimation simulation monte-carlo maximum-likelihood statistics stochastic-differential-equations fitting estimation python brownian maximum-likelihood-estimation milstein fit sdes likelihood ait-sahalia
Language:Python 44
dynamic-discrete-choice
jabbring / dynamic-discrete-choice
Matlab package for learning to specify, compute, and estimate dynamic discrete choice models
dynamic-discrete-choice ddc estimation maximum-likelihood nested-fixed-point-method nfxp mpec firm-dynamics matlab exercises
Language:MATLAB 43
pachadotdev / gravity
R package that provides estimation methods for Gravity Models
bvu bvw ddm econometrics glm gpml gravity international-trade lm maximum-likelihood nbpml nls ols ppml r sils tobit trade
Language:R 35
viodotcom / ppca_rs
Python+Rust implementation of the Probabilistic Principal Component Analysis model
data-science pca pca-analysis python rust dimensionality-reduction em-algorithm linear-algebra machine-learning machine-learning-algorithms maximum-likelihood maximum-likelihood-estimation missing-data missing-values
Language:Rust 35
evolbioinfo / pastml
Ancestral character reconstruction and visualisation for rooted phylogenetic trees
phylogeography phylogenetics ancestral-character-reconstruction visualisation parsimony maximum-likelihood
Language:Python 32
gokhanntosun / channel-estimation
Channel estimations based on RLS, LMS and ML methods.
channel-estimation estimation least-mean-squares maximum-likelihood monte-carlo-simulation recursive-least-squares
Language:MATLAB 27
reslp / phylociraptor
rapid phylogenomic tree calculator - A highly customizable framework for reproducible phylogenomic inference
bioinformatics genomics phylogenetics pipeline phylogenomics phylogenomics-pipeline snakemake species-tree maximum-likelihood
Language:Python 24
docnok / detection-estimation-learning
Python notebooks for my graduate class on Detection, Estimation, and Learning. Intended for in-class demonstration. Notebooks illustrate a variety of concepts, from hypothesis testing to estimation to image denoising to Kalman filtering. Feel free to use or modify for your instruction or self-study.
detection estimation-theory machine-learning python python-notebook jupyter-notebook teaching-materials estimation regression kalman-filter hypothesis-testing signal-processing ridge-regression lasso lasso-regression tikhonov-regularization maximum-likelihood
Language:Jupyter Notebook 21
Ensembl / treebest
TreeBeST: Tree Building guided by Species Tree (Ensembl Compara modifications)
phylogeny maximum-likelihood neighbor-joining reconciliation ensembl gene-trees species-trees
Language:C 21
mashephe / AmpTools
A utility library for performing amplitude analysis on particle physics data.
data-analysis maximum-likelihood particle-physics
Language:C++ 20
vinuesa / TIB-filoinfo
Talleres Internacionales de Bioinformática - Centro de Ciencias Genómicas, UNAM, Cuernavaca, México
bash-scripting bioinformatics bioinformatics-scripts blast linux-shell maximum-likelihood model-selection multiple-sequence-alignment pangenomics phylogenetics phylogenomics reciprocal-blast-hits tutorials
Language:Shell 20
mackelab / CorBinian
CorBinian: A toolbox for modelling and simulating high-dimensional binary and count-data with correlations
binary multivariate correlation mcmc entropy ising-model neurons maxent high-dimensional-data maximum-likelihood dichotomized-gaussian k-pairwise iterative-scaling gibbs-sampling specific-heat criticality heat-capacity bernoulli count maximum-entropy
Language:MATLAB 19
4ment / physher
A multi-algorithmic framework for phylogenetic inference
bayesian-inference c genetic-algorithm maximum-likelihood mcmc phylogenetics variational-inference
Language:C 14
apallath / WHAM
Python package to construct free energy profiles from biased molecular simulation data using both log-likelihood maximization and self-consistent iteration approaches.
maximum-likelihood optimization statistical-mechanics
Language:Python 14
jkirkby3 / BsplineDensity
B-Spline Density Estimation Library - nonparametric density estimation using B-Spline density estimator from univariate sample.
nonparametric density estimation bsplines statistics nonparametric-statistics kernel-density-estimation kde kernel basis kernel-density maximum-likelihood maximum-likelihood-estimation nonparametric-regression spline-fit
Language:MATLAB 13
ddegras / switch-ssm
Markov-Switching State-Space Models
em-algorithm kalman-filter kalman-smoother maximum-likelihood state-space-model switching-model
Language:MATLAB 12
justincbagley / piranha
Scripts for file processing and analysis in phylogenetics and phylogeography
phylogeny phylogeography shell r bayesian-inference maximum-likelihood snps population-structure supercomputer ssh
Language:Shell 11
oguzhan-baser / Channel-Estimation
Estimating unknown static channel coefficients on a communication system utilizing Maximum Likelihood Single-Shot Estimation algorithm.
channel-estimation digital-communications equalization estimation maximum-likelihood maximum-likelihood-estimation monte-carlo-simulation single-shot
Language:MATLAB 10
welschma / TemplateFitter
Perform template likelihood fits on binned datasets to extract contribution to the dataset from different processes .
fitting hep particle-physics maximum-likelihood
Language:Python 9
JonasMoss / univariateML
An R package for maximum likelihood estimation of univariate densities.
estimation density maximum-likelihood
Language:R 8
xzluo97 / X-metric
X-Metric: An N-Dimensional Information-Theoretic Framework for Groupwise Registration and Deep Combined Computing (TPAMI 2023)
groupwise-registration image-segmentation information-theory maximum-likelihood medical-image-registration python probabilistic-graphical-models statistical-modelling mutual-information deformable-registration motion-estimation multimodal rigid-registration
Language:Python 8
fpv-iplab / Differentiable-Task-Graph-Learning
Code for the paper "Differentiable Task Graph Learning: Procedural Activity Representation and Online Mistake Detection from Egocentric Videos" [NeurIPS (spotlight), 2024]
egocentric-videos maximum-likelihood mistake-detection task-graph neurips-2024 spotlight task-planning
Language:Python 6
justincbagley / MAGNET
Shell script pipeline for inferring ML gene trees for many loci (e.g. genomic RAD loci)
phylogeny gene-trees maximum-likelihood snp-data raxml inferring-species-trees pipeline
Language:Shell 6
markjolah / Mappel
Maximum a posteriori Point Emitter Localization -- High-performance, parallel, robust, cross-platform localization for EMCCD and SCMOS microscopy.
openmp matlab python flouresence-microscopy maximum-likelihood
Language:C++ 6
lkazantzi / tilted-cosmology
The numerical analysis files corresponding to arxiv: 2202.00962
cosmology data-analysis data-analysis-python cosmological-parameters maximum-likelihood mathematica python pantheon-data
Language:Mathematica 5