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The Top 23 Simulation Bioinformatics Open Source Projects

Open source projects categorized as Simulation Bioinformatics
Categories > Data Processing > Bioinformatics
Categories > Science > Simulation
Splatter ⭐ 195
Simple simulation of single-cell RNA sequencing data
most recent commit 6 months ago
Insilicoseq ⭐ 158
🚀 A sequencing simulator
dependent packages 1total releases 37most recent commit 4 months agopypi InSilicoSeq} Downloads
Pydna ⭐ 140
Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.
dependent packages 7total releases 110most recent commit 4 months agopypi pydna} Downloads
Phyx ⭐ 100
phylogenetics tools for linux (and other mostly posix compliant) computers
most recent commit 5 months ago
Pax_sapientica ⭐ 61
🌿: GIS for philological, archaeological, and anthropological data.
most recent commit 3 months ago
Pycontact ⭐ 34
Analysis of non-covalent interactions in MD trajectories
total releases 2most recent commit a year ago
Pysces ⭐ 29
The official PySCeS project source code repository.
most recent commit 4 months ago
Stochpy ⭐ 28
StochPy is a versatile stochastic modeling package which is designed for stochastic simulation of molecular control networks
most recent commit 3 years ago
Lightdock Python2.7 ⭐ 20
Protein-protein, protein-peptide and protein-DNA docking framework based on the GSO algorithm
most recent commit 4 years ago
Seqmaker.jl ⭐ 19
(No maintenance) Next Generation Sequencing Simulation with SNP, Variation and Sequencing Error Integrated
most recent commit 7 years ago
Sigprofilersimulator ⭐ 18
SigProfilerSimulator allows realistic simulations of mutational patterns and mutational signatures in cancer genomes. The tool can be used to simulate signatures of single point mutations, double point mutations, and insertion/deletions. Further, the tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
most recent commit 7 months ago
Mutation Simulator ⭐ 16
A tool for simulating random mutations in any genome
most recent commit a year ago
Taeper ⭐ 16
A small python program to simulate a real-time Nanopore sequencing run based on a previous experiment.
total releases 1most recent commit 6 years ago
Splatter Paper ⭐ 15
Data and analysis for the Splatter paper
most recent commit 6 years ago
Longbow ⭐ 14
Longbow is a tool for automating simulations on a remote HPC machine. Longbow is designed to mimic the normal way an application is run locally but allows simulations to be sent to powerful machines.
most recent commit 4 years ago
Physiboss ⭐ 14
Multiscale simulation of multi-cellular system
most recent commit 4 years ago
Rnftools ⭐ 13
RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.
total releases 26most recent commit 5 years ago
Alcor ⭐ 10
Alignment-free simulation, computation, and visualization of Low-compexity regions in biological data
most recent commit 4 months ago
Singa ⭐ 8
🍃 SiNGA (Simulation of Natural Systems using Graph Automata) is an open-source library containing tools especially for structural bioinformatics and systems biology.
dependent packages 4total releases 5most recent commit a year ago
Mobspy ⭐ 8
The Meta-Species Oriented Biosystem Syntax in Python (MobsPy) was invented to facilitate the design of complex Chemical Reaction Networks
total releases 15most recent commit 3 months ago
Pycellerator ⭐ 8
Biological Simulation using Reaction-Like Arrows
most recent commit 6 years ago
Nanosim H ⭐ 8
NanoSim-H: a simulator of Oxford Nanopore reads; a fork of NanoSim.
total releases 7most recent commit 3 years ago
Advancesyntoolkit ⭐ 7
Toolkit for Modelling and Simulation of Gene Expressions and Metabolism
most recent commit 2 years ago
The 3 Most Depended On Simulation Bioinformatics Open Source Projects
Insilicoseq ⭐ 158
:rocket: A sequencing simulator
dependent packages 1total releases 37latest release August 10, 2023most recent commit 4 months agopypi InSilicoSeq} Downloads
The 10 Latest Releases In Simulation Bioinformatics Open Source Projects
Insilicoseq ⭐ 158
:rocket: A sequencing simulator
dependent packages 1total releases 37latest release August 10, 2023most recent commit 4 months agopypi InSilicoSeq} Downloads
Pycontact ⭐ 34
Analysis of non-covalent interactions in MD trajectories
total releases 2latest release September 01, 2020most recent commit a year ago
Rnftools ⭐ 13
RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.
total releases 26latest release October 17, 2018most recent commit 5 years ago
Nanosim H ⭐ 8
NanoSim-H: a simulator of Oxford Nanopore reads; a fork of NanoSim.
total releases 7latest release February 28, 2017most recent commit 3 years ago
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