☆39Jul 5, 2023Updated 2 years ago
Alternatives and similar repositories for ML-iAMR
Users that are interested in ML-iAMR are comparing it to the libraries listed below
Sorting:
- A library of Machine Learning tools to predict antibiotic resistance from NGS data☆18May 30, 2022Updated 3 years ago
- 16S pipeline using qiime2 created with snakemake☆12Jan 2, 2026Updated 2 months ago
- An python omics data toolkit for the analysis across biological scales☆11Dec 5, 2023Updated 2 years ago
- Code referenced in the manuscript 'The 16S rRNA gene for species and strain-level microbiome analysis'☆10Sep 26, 2019Updated 6 years ago
- Some examples to analyze mass spectrometry data using MALDIquant☆17Oct 13, 2022Updated 3 years ago
- Perl and Python scripts allowing to get sequence information from GenBank, RefSeq or ENA sequence repositories☆14Mar 29, 2025Updated 11 months ago
- Agent that summarises literature and answers academic questions using the arXiv API☆22Jan 31, 2026Updated last month
- Permutation Tests for Linear Models☆16Nov 21, 2025Updated 3 months ago
- ccfind - circular complete genome finder with clues of terminal redundancy☆16Feb 10, 2026Updated 3 weeks ago
- The RepeatScout 1.0.5, written by Pevzner et al., source code for browsing. The official release and more information are available at h…☆16Apr 14, 2023Updated 2 years ago
- finding conserved regions in highly diverse genomes☆16Jun 1, 2025Updated 9 months ago
- A bacterial GWAS pipeline written in Nextflow that uses Pyseer; Part III Project for Systems Biology at the University of Cambridge☆21Jan 20, 2026Updated last month
- Efficient retrieval, download, and unification of genomic data from leading biodiversity databases☆18Updated this week
- A Nextflow pipeline for running synteny analysis.☆16Jun 17, 2025Updated 8 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Feb 3, 2021Updated 5 years ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆18Jul 16, 2024Updated last year
- a framework for predicting global protein-protein interaction networks from dynamic mass spec data☆24Mar 20, 2024Updated last year
- Finding regions of similarity between plasmids☆17Nov 2, 2022Updated 3 years ago
- Code repository for machine learning and computational analysis of large-scale microbial genomics data (https://rdcu.be/9rHj)☆20May 12, 2025Updated 9 months ago
- Three bacterial GWAS methods all rolled into one easy-to-use R package☆22Apr 16, 2024Updated last year
- Parallel/Homoplasic SNP Finder☆21May 3, 2023Updated 2 years ago
- Template with code & dataset for the "Structural basis for solubility in protein expression systems" challenge at the Copenhagen Bioinfor…☆22Apr 25, 2021Updated 4 years ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆91Dec 3, 2025Updated 3 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Sep 23, 2022Updated 3 years ago
- VueGen automates the creation of reports from bioinformatics outputs, supporting formats like PDF, HTML, DOCX, ODT, PPTX, Reveal.js, Jupy…☆38Feb 10, 2026Updated 3 weeks ago
- Refining the impact of genetic evidence on clinical success☆27Jul 14, 2024Updated last year
- Hapo-G is a tool that aims to improve the quality of genome assemblies by polishing the consensus with accurate reads.☆26Oct 24, 2025Updated 4 months ago
- Using ggtree to Visualize Data on Tree-Like Structure☆25Mar 6, 2020Updated 6 years ago
- Identify short variants and structural variants from raw sequencing data or genomic sequences☆34Mar 27, 2024Updated last year
- Gene Absence Presence Identification tool.☆27Mar 28, 2025Updated 11 months ago
- Consensus genome annotation using OMA☆31Jan 14, 2026Updated last month
- xOmicsShiny: an R Shiny application for cross-omics data analysis and pathway mapping, Bioinformatics Advances, Volume 5, Issue 1, 2025, …☆38Feb 6, 2026Updated last month
- R Fundamentals for Biologists☆33Jan 25, 2025Updated last year
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Dec 2, 2024Updated last year
- An R package to identify and classify duplicated genes from whole-genome protein sequence data☆32Sep 11, 2025Updated 5 months ago
- Antibiotic resistance prediction in minutes☆113Nov 24, 2024Updated last year
- gcplyr is an R package that facilitates wrangling and analysis of microbial growth curve data☆38Jan 29, 2026Updated last month
- A collection of open source bioinformatics tools developed and used by Addgene.☆11Sep 9, 2025Updated 5 months ago
- we collected Gram-stained bacteria images from lower respiratory tract specimens of patients with lung infections in Chinese PLA General…☆12Jan 18, 2024Updated 2 years ago