Model
- FOCUS 0.29 – A model to Identify Organisms present in Metagenomes
- MOABS 1.3.2 – Model based Analysis of Bisulfite Sequencing data
- SMOG 2.0.3 – Structure-based Models for Biomolecules
- EBChangePoint 0.1.0 – Empirical Bayes Change-point Model
- CellOrganizer 2.4 – Image-derived Models of Subcellular Organization and Protein Distribution
- GraphiteLifeExplorer 20120731 – Model in 3D Assemblies of Proteins and DNA
- MMB 2.15 – Model the Structure and Dynamics of Macromolecules
- MORPHIN – Model Organisms Projected on a Human Integrated Gene Network
- B-NEM – Boolean Nested Effect Models
- MatNet – MATLAB-NetLogo Model of Pseudomonas Biofilm Formation
- nem 2.44.0 – Nested Effects Models
- Autoosc 0.1 – Automated Analysis of Biological Oscillator Models using Mode Decomposition
- CellBlender 1.0.1 – Blender addon for Creation, Simulation, Visualization, and analysis of 3D Cell Models
- NetPhorest – Model Phosphorylation driven Cellular Signaling Networks
- iFBA 1.0 – Integrated Flux Balance Analysis Model of Escherichia coli
- SensSB 20120926 – Development and Sensitivity Analysis of Systems Biology Models
- CellDesigner 4.4 – Biochemical Networks Modeling Tool
- GPSeq 0.5 – Using the Generalized Poisson distribution to model sequence read counts from high throughput sequencing experiments
- PeptideBuilder 1.0.1 – Python Library to Generate Model Peptides
- TiMEx 0.99 – A Waiting Time Model for Mutually Exclusive Cancer Alterations
- MEED – Model Expansion Experimental Design
- MICC 1.0 – Model based Interaction Calling from ChIA-PET data
- ModelGenerator 0.851 – Amino Acid & Nucleotide Substitution Model Selection
- nondetects 1.4.0 – Model and Impute non-detects in qPCR data
- MACE 1.2 – Model-based Analysis of ChiP-exo
- SoloDel 1.0.0 – Somatic Low-frequent Deletion Caller Model
- phyloExpCM 0.32 – Phylogenetic Analysis with experimentally determined Codon Models
- RNAenn – Energy Parameters and novel algorithms for Extended nearest Neighbor Energy Model of RNA
- Clumpak 20150326 – Model-based Population Structure Analysis
- BkTree 20150402 – Prediction of RNA Nucleotide Interactions with Backbone k-Tree Model
- CreateFibril 2.5 – Build Atomic Resolution Models of Protein Fibrils
- MBCluster.Seq 1.0 – Model-Based Clustering for RNA-seq Data
- HHMMiR 1.2 – Prediction of microRNAs using Hierarchical Hidden Markov models
- MACML 1.1.2 – Model Averaging Clustering by Maximum Likelihood
- RFMapp 20121217 – Ribosome Flow Model Application
- ModFOLD 4.0 – Model Quality Assessment Server
- DISCOVER – Model for Factor Binding site Discovery in Metazoan Genomes
- PIMSA 0.1 – Pathway Informed Model Selection Algorithm
- lDDT – Comparing Protein Structures and Models using Distance Difference Tests
- SHM 0.1 – Models of Somatic Hypermutation
- BMIQ 1.3 – Beta Mixture Quantile Model
- SOMPNN – An Efficient Non-Parametric Model for Predicting Transmembrane Helices
- PSTAG 2.1.4a – Model Pseudoknot RNA Structure
- FiltRest3D – Filtering Protein Models by Fuzzy Restraints
- PconsD – ultra rapid, accurate model Quality Assessment for Protein Structure Prediction
- phylolm 2.0 – R package for Fitting Phylogenetic Linear Regression models
- Piet 0.1.0 – DNA CNV Analysis tools based on fused Lasso type of Model
- Camelot – Model Complex Traits and Identify the Potential underlying Causal Factors
- HAPMIXMAP 1.0 – Model HapMap Haplotypes
- ss.hmm 1.0 – Segmental Semi-Markov model
- Sunflower 1.1.0 – Model for Natural Selection in Promoters
- jagn 1.02 – Java-Based Model for Artificial Gene Networks Generation
- simbTUM 3.0a – Simulation of Stochastic processes and ODE models in Biology
- GRaPe 1.0 – Generation of Generic Rate Equations for all Reactions in a Model
- MILLIPEDE 1.1.0 – Model for Identifying Transcription Factor Binding Sites
- Visualisation tools – Display 2-loop & 3-loop Arabidopsis Clock Models
- ADMIXMAP 3.8.3103 – Model Admixture using Marker Genotype data
- SBML-PET-MPI 1.2 – Parallel Parameter Estimation Tool for SBML based Models
- OpenCell 0.8 – Environment for Working with CellML Models
- DBM – Dynamic Bayesian Markov model for Genotype Calling
- eCEO 0.11.01 – efficient Cloud Epistasis cOmputing model in Genome-wide association study
- MIRACH 1.0 – Statistical Online Model Checker for Biological Pathway Models
- Judi 1.0 – Data and Model Integration for Biology
- Cromwell 1.0 – The New Model Processor for Mass Spectrometry Data
- CMCompare 0.0.1 – Discriminatory Power of RNA Family Models
- FBA 2.0 – Flux Balance Analysis E.coli Model
- Statio – Test Stationarity of Base Composition and Models
- MUMMALS 1.01 – MUltiple alignment with Multiple MAtch state models of Local Structure
- icbn 0.2-13 – Isotonic Regression Conjunctive Bayesian Network models
- EMOGEE 20070704 – Estimator for MOdels of Gene Expression Evolution
- DNC-MIX – Model Distribution of Gene Expression Profile of Test Sample as Mixture of Distributions
- ModPipe 2.2.0 – Calculate Protein Structure Model
- Payao Uploader 1.0 – CellDesigner Plugin to Upload Model to Payao