GitHub topics: mutation-analysis
infection/infection
PHP Mutation Testing library
Language: PHP - Size: 48.2 MB - Last synced at: 23 minutes ago - Pushed at: about 8 hours ago - Stars: 2,100 - Forks: 164
datagone/vscode-stryker-mutator
Unofficial VSCode extension of 'Stryker Mutator' for hunting mutants hiding in our codebase (currently, it supports .NET)
Language: TypeScript - Size: 3.05 MB - Last synced at: about 15 hours ago - Pushed at: about 16 hours ago - Stars: 3 - Forks: 0
theofidry/awesome-mutation-testing
Mutation testing resources: how to make better code by introducing bugs
Size: 105 KB - Last synced at: 1 day ago - Pushed at: 1 day ago - Stars: 424 - Forks: 38
sebastian-gregoricchio/SPACCa
Snakemake Pipeline for the Analyses of ChIP-seq data in Cancer samples
Language: Python - Size: 4.74 MB - Last synced at: 2 days ago - Pushed at: 2 days ago - Stars: 0 - Forks: 0
hcoles/pitest
State of the art mutation testing system for the JVM
Language: Java - Size: 14.2 MB - Last synced at: 8 days ago - Pushed at: 8 days ago - Stars: 1,743 - Forks: 354
zalanlevai/mutest-rs
Mutation testing tools for Rust
Language: Rust - Size: 2.71 MB - Last synced at: 13 days ago - Pushed at: 13 days ago - Stars: 13 - Forks: 1
sualeh/introduction-to-mutation-testing
Introduction to Mutation Testing
Language: C# - Size: 828 KB - Last synced at: 13 days ago - Pushed at: 14 days ago - Stars: 23 - Forks: 5
mull-project/mull
Practical mutation testing and fault injection for C and C++
Language: C++ - Size: 6.07 MB - Last synced at: 15 days ago - Pushed at: 22 days ago - Stars: 769 - Forks: 76
AlexandrovLab/SigProfilerMatrixGenerator
SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations only to parts for the genome (e.g., exome or a custom BED file). The tool seamlessly integrates with other SigProfiler tools.
Language: Python - Size: 1 GB - Last synced at: 6 days ago - Pushed at: 6 days ago - Stars: 107 - Forks: 40
nodrogluap/tamor
Illumina Dragen cancer genome and transcriptome analysis automation using Snakemake
Language: Python - Size: 381 MB - Last synced at: 23 days ago - Pushed at: 23 days ago - Stars: 7 - Forks: 1
haliliceylan/MUT4SLX
The Simulink Model Mutation Testing project provides a framework for generating mutants, and CSV file as an output. It utilizes the MATLAB environment to load the model, apply mutations, and collect outputs.
Language: HTML - Size: 17.9 MB - Last synced at: 4 days ago - Pushed at: about 1 month ago - Stars: 5 - Forks: 1
AlexandrovLab/SigProfilerPlotting
SigProfilerPlotting provides a standard tool for displaying all types of mutational signatures as well as all types of mutational patterns in cancer genomes. The tool seamlessly integrates with other SigProfiler tools.
Language: Python - Size: 89.7 MB - Last synced at: 8 days ago - Pushed at: 3 months ago - Stars: 48 - Forks: 15
ValldHebron-Bioinformatics/minMutFinder
Tool written in Python and Bash implemented in a Nextflow pipeline that accurately identifies mutations and assesses their frequencies, accounting for multiple nucleotide mutations occurring within a single codon. Additionally, it can annotate mutations associated to phenotypical changes in viral populations based on user-supplied datasets.
Language: Python - Size: 79.7 MB - Last synced at: 25 days ago - Pushed at: 25 days ago - Stars: 1 - Forks: 0
infection/playground
Infection Playground - online tool to try Infection right in your browser.
Language: PHP - Size: 18.1 MB - Last synced at: 2 days ago - Pushed at: 28 days ago - Stars: 3 - Forks: 2
AlexandrovLab/SigProfilerExtractor
SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
Language: Python - Size: 166 MB - Last synced at: 27 days ago - Pushed at: 29 days ago - Stars: 158 - Forks: 54
humbug/humbug 📦
Humbug is a Mutation Testing framework for PHP to measure the real effectiveness of your test suites and assist in their improvement. It eats Code Coverage for breakfast.
Language: PHP - Size: 968 KB - Last synced at: 6 days ago - Pushed at: over 7 years ago - Stars: 1,129 - Forks: 70
ChmielewskiKamil/checkmate
Testing the mutations generated by Gambit.
Language: Go - Size: 24.4 KB - Last synced at: 26 days ago - Pushed at: 26 days ago - Stars: 1 - Forks: 0
Optimized-Brain/MutAIon
A Full Stack Variant Effect Predictor leveraging the Evo2 LLM for Single Nucleotide Variant(SNV) pathogenicity analysis, powered by a Modal‑deployed FastAPI GPU backend and a Next.js + Shadcn UI frontend
Language: TypeScript - Size: 15.2 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0
jajik123/GenAnalyzer
GenAnalyzer is a web application designed for the analysis of protein sequences, mutation detection, and exploring their links to genetic diseases. Built using Flask, this tool integrates data from UniProt and ClinVar for efficient bioinformatics analysis.
Language: JavaScript - Size: 2.03 MB - Last synced at: about 1 month ago - Pushed at: about 1 month ago - Stars: 0 - Forks: 0
livnat-lab/HBB_HBD
MEMDS (Mutation Enrichment followed by upscaled Maximum Depth Sequencing) protocol output analysis pipeline - older version
Language: Python - Size: 179 KB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0
AlexandrovLab/SigProfilerExtractorR
An R wrapper for SigProfilerExtractor that allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the number of operative mutational signatures, their activities in each sample, and the probability for each signature to cause a specific mutation type in a cancer sample. The tool makes use of SigProfilerMatrixGenerator and SigProfilerPlotting.
Language: R - Size: 676 KB - Last synced at: about 1 month ago - Pushed at: 11 months ago - Stars: 15 - Forks: 1
EngineeringSoftware/mcoq
Mutation analysis tool for Coq verification projects
Language: Java - Size: 1.9 MB - Last synced at: about 1 month ago - Pushed at: over 4 years ago - Stars: 29 - Forks: 1
AlexandrovLab/SigProfilerClusters
Tool for analyzing the inter-mutational distances between SNV-SNV and INDEL-INDEL mutations. Tool separates mutations into clustered and non-clustered groups on a sample-dependent basis.
Language: Python - Size: 1.7 MB - Last synced at: 8 days ago - Pushed at: 8 days ago - Stars: 12 - Forks: 1
mohrez86/pyllmut
A research-based LLM-driven mutant generator library for Python
Language: Python - Size: 91.8 KB - Last synced at: 9 days ago - Pushed at: 3 months ago - Stars: 2 - Forks: 0
AlexandrovLab/SigProfilerTopography
SigProfilerTopography allows evaluating the effect of chromatin organization, histone modifications, transcription factor binding, DNA replication, and DNA transcription on the activities of different mutational processes. SigProfilerTopography elucidates the unique topographical characteristics of mutational signatures.
Language: Python - Size: 5.06 MB - Last synced at: 27 days ago - Pushed at: 4 months ago - Stars: 19 - Forks: 1
madsondeluna/getvar_containerized
O GetVar Ă© Ăştil para o auxĂlio a diagnĂłsticos genĂ©ticos e aconselhamentos, permitindo decisões baseadas em dados com respaldo cientĂfico, otimizando tempo e servindo de suporte ao sistema de decisĂŁo clĂnico.
Language: HTML - Size: 330 KB - Last synced at: 5 months ago - Pushed at: 5 months ago - Stars: 0 - Forks: 0
AlexandrovLab/SigProfilerPlottingR
An R wrapper for running the SigProfilerPlotting framework
Language: R - Size: 861 KB - Last synced at: about 1 month ago - Pushed at: 5 months ago - Stars: 10 - Forks: 1
infection/homebrew-infection
Homebrew tap for https://infection.github.io/
Language: Ruby - Size: 13.7 KB - Last synced at: about 7 hours ago - Pushed at: 6 months ago - Stars: 5 - Forks: 1
eringill/chronic_infection_python
A simple GUI that allows users to check whether mutations from a SARS-CoV-2 genome best fit a mutational distribution of genomes derived from global, chronic, or deer infections.
Language: Python - Size: 11.1 MB - Last synced at: 7 months ago - Pushed at: 7 months ago - Stars: 2 - Forks: 1
STAMP-project/pitest-descartes
Descartes supports developers to improve their test suites by reporting weak spots in covered code
Language: Java - Size: 2.82 MB - Last synced at: 4 months ago - Pushed at: 4 months ago - Stars: 126 - Forks: 21
lisabensoussan/DNA_lab
This project provides hands-on experience in DNA analysis using R, covering sequence manipulation, mutation analysis, GC content, fragment analysis, sequence alignment, RNA-seq, variant analysis, and phylogenetics.
Language: HTML - Size: 6.51 MB - Last synced at: 4 months ago - Pushed at: 9 months ago - Stars: 0 - Forks: 0
akshaydake123/Mutation-Testing
Projects that use mutation testing, based on mutation operators applied at the level of a statement within a method or a function. The mutated program needs to be strongly killed by the designed test cases. At least three different mutation operators should be used.
Language: Java - Size: 3.77 MB - Last synced at: 10 months ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
ojcharles/MutationFeatures
Generate a rich feature space describing all possible mutations in a given protein sequence (+ structure)
Language: Python - Size: 1.06 MB - Last synced at: 11 months ago - Pushed at: 11 months ago - Stars: 5 - Forks: 1
phantran/moco
An efficient mutation testing tool written in Kotlin for Java Maven projects
Language: Kotlin - Size: 643 KB - Last synced at: 6 months ago - Pushed at: about 4 years ago - Stars: 3 - Forks: 1
studyfair/studyfair
Student plagiarism detection tool based on CCD algorithms
Language: Ruby - Size: 566 KB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0
IbrahimTanyalcin/I-PV
Interactive Protein Sequence VIsualization/Viewer - Interactive Circos
Language: HTML - Size: 66.6 MB - Last synced at: 3 months ago - Pushed at: about 1 year ago - Stars: 10 - Forks: 1
scoban/mutation-analysis
Experimental Evaluation and Comparison of Java Mutation Tools
Language: Shell - Size: 29.8 MB - Last synced at: about 1 year ago - Pushed at: about 7 years ago - Stars: 0 - Forks: 1
STAMP-project/pitmp-maven-plugin
Maven plugin to handle multi module projects for PiTest
Language: Java - Size: 2.69 MB - Last synced at: about 1 year ago - Pushed at: about 2 years ago - Stars: 44 - Forks: 14
magsilva/proteum
Tool for mutation testing of C programs
Language: C - Size: 2.25 MB - Last synced at: about 1 year ago - Pushed at: about 5 years ago - Stars: 19 - Forks: 10
seer-lab/MutationScorePredictor
A project that will predict the mutation score of methods and classes using a support vector machine and source code metrics
Language: Ruby - Size: 392 KB - Last synced at: about 1 year ago - Pushed at: about 5 years ago - Stars: 2 - Forks: 0
INDEINS/DENV-OUTBREAK
Genomic surveillance for Dengue peruvian outbreaks
Language: Shell - Size: 543 KB - Last synced at: over 1 year ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 0
AjNavneet/GeneticMutation_Classifier
Multi-class classifier for DNA genetic mutations.
Language: Jupyter Notebook - Size: 3.25 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
paulashford/funvar-tracerx
Collated scripts for FunVar-TRACERx gene duplication, diversity and neofun.
Language: R - Size: 5.92 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
gorkemkose/ENS210_Computational_Biology_Project
Term project for the Computational Biology (ENS210) course in Sabancı University.
Language: Python - Size: 10.2 MB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 1 - Forks: 0
Mashin6/detect-mutations
Python script for detecting mutations in aligned reads (.bam |.sam) e.g. from RNA base conversion techniques such as TimeLapse, SLAM-seq, TUC-seq
Language: Python - Size: 5.86 KB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 3 - Forks: 2
thierry-tct/mart
LLVM Mutation Artisan (MART) is a configurable mutation testing framework based on LLVM
Language: C++ - Size: 80.8 MB - Last synced at: over 1 year ago - Pushed at: almost 3 years ago - Stars: 25 - Forks: 6
tiagoantonio/woland
WOLAND is a multiplatform tool to analyze point mutation patterns using resequencing data from any organism or cell. It is implemented as a Perl and R tool using as inputs filtered unannotated or annotated SNV lists, combined with its correspondent genome sequences.
Language: Perl - Size: 2.62 MB - Last synced at: almost 2 years ago - Pushed at: over 7 years ago - Stars: 1 - Forks: 3
AlexandrovLab/SigProfilerMatrixGeneratorR
R wrapper for utilizing the SigProfilerMatrixGenerator framework
Language: R - Size: 1.42 MB - Last synced at: about 1 month ago - Pushed at: over 2 years ago - Stars: 20 - Forks: 4
GZoltar/killmap
Utility Java program to perform mutation-analysis
Language: Java - Size: 43.9 KB - Last synced at: over 1 year ago - Pushed at: almost 7 years ago - Stars: 3 - Forks: 1
hrbigelow/depngs
Next-gen Sequencing analysis tools
Language: C - Size: 2.05 MB - Last synced at: 3 months ago - Pushed at: over 2 years ago - Stars: 0 - Forks: 0
ninadakolekar/KRAS-Mutation-Detection 📦
Mutation Detection in Lung Cancer Cell Lines using CNNs
Language: Python - Size: 58.6 KB - Last synced at: about 2 years ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0
ali-ghanbari/memu-demo
Faster Mutation Analysis with MeMu
Language: Java - Size: 7.03 MB - Last synced at: over 2 years ago - Pushed at: about 3 years ago - Stars: 2 - Forks: 0
Noam-Hadar/BAMdelbee
BAMdelbee is a novel tool for discovering homozygous deletions in Whole-exome-sequencing (WES) and whole-genome-sequencing (WGS) data. WES or WGS samples generated by the same method produce BAM files with similar alignment coverage across the genome. BAMdelbee locates homozygous deletions by pinpointing regions covered in all samples but the ones in question. We hereby demonstrate how our application can spot homozygous deletions absent from VCF files for being too vast, yet undetectable by chromosomal microarrays (CMA) for being too small. The application is freely available on our website and can run on a common laptop. Therefore, we recommend integrating it into WES and WGS interpretation pipelines for recessive diseases.
Language: Python - Size: 39.8 MB - Last synced at: about 2 years ago - Pushed at: about 3 years ago - Stars: 0 - Forks: 0
uds-helms/MutaNET
Automated analysis tool for mutations in promoters, transcription factor binding sites, coding regions and protein domains in the context of gene regulatory networks.
Language: Python - Size: 333 MB - Last synced at: 7 months ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 1
reimandlab/needleplot
Another needleplot for mutation data, used by ActiveDriverDB
Language: JavaScript - Size: 52.7 KB - Last synced at: about 1 year ago - Pushed at: over 4 years ago - Stars: 2 - Forks: 0
christoffer-nylen/dexcov
Generates a Dextool Mutate vs LCOV side by side presentation
Language: HTML - Size: 762 KB - Last synced at: about 2 years ago - Pushed at: about 4 years ago - Stars: 1 - Forks: 0
drake69/epimut
Stochastic Epimutation Finder
Language: R - Size: 35.2 KB - Last synced at: over 2 years ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0
sung/nectarmutation.org
things behind nectarmutation.org
Language: Perl - Size: 2.45 MB - Last synced at: over 2 years ago - Pushed at: over 4 years ago - Stars: 0 - Forks: 0
rcs333/frequency-scanner
Reports frequency of all single nucleotide changes for a group of fastq files
Language: Python - Size: 27.3 KB - Last synced at: about 1 year ago - Pushed at: over 5 years ago - Stars: 0 - Forks: 0
paweltatarczuk/judy-generator-experiment
Judy-generator tool experiment for master-thesis
Language: Python - Size: 30.6 MB - Last synced at: over 2 years ago - Pushed at: over 7 years ago - Stars: 0 - Forks: 2
