Aho-Corasick automation for large-scale multi-pattern matching. Available for C/C++, Python, and Java on Linux, macOS, and Windows.
☆14Oct 29, 2024Updated last year
Alternatives and similar repositories for actrie
Users that are interested in actrie are comparing it to the libraries listed below
Sorting:
- ☆14Apr 7, 2025Updated 10 months ago
- Codes for the Iso-Seq variant-calling paper☆11Apr 28, 2023Updated 2 years ago
- Java software to analyse phylogeny-trait correlations in discrete traits, accounting for phylogenetic uncertainty via posterior sampling.☆12Sep 26, 2017Updated 8 years ago
- Exchange Python-Graph-Objects between networkx, igraph and graph-tools☆12Mar 15, 2024Updated last year
- (a) (p)erfect (c)ircle? ... tests DNA sequences for overlapping ends, then trims and rejoins, and aligns reads to test the join☆11Apr 29, 2021Updated 4 years ago
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆13Feb 9, 2025Updated last year
- This repository contains all the solutions of assignments, starter files and other materials related to this specialization.☆10Jan 31, 2021Updated 5 years ago
- DNAscan2 is a fast and efficient bioinformatics pipeline that allows for the analysis of DNA Next Generation sequencing data, requiring v…☆14May 7, 2024Updated last year
- ☆15Feb 14, 2024Updated 2 years ago
- WITCH is a multiple sequence alignment method that uses multiple weighted HMMs to align unaligned sequences and find consensuses.☆13Nov 18, 2025Updated 3 months ago
- Fun project to run your own LLM chat bot using llama.cpp☆11Jun 9, 2023Updated 2 years ago
- PLSA for sparse matrices implemented with Numba☆11Oct 18, 2016Updated 9 years ago
- open IPython notebooks for the book of Scientific Computing with Python☆11Jul 16, 2015Updated 10 years ago
- PowerBacGWAS: Power calculations for Bacterial GWAS☆13Feb 2, 2022Updated 4 years ago
- A reliable gap filling pipeline for draft genomes☆11Sep 17, 2019Updated 6 years ago
- Kincore-Standalone2 - Python3 code for calculating the conformational state of typical protein kinases☆17Sep 18, 2023Updated 2 years ago
- an ensemble usage of MAFFT-linsi --add on large datasets☆13May 31, 2024Updated last year
- Autonomous agentic system for supervised machine learning model development.☆21Updated this week
- Kinship In Mixed Model Analysis of RNA-seq☆15Apr 14, 2025Updated 10 months ago
- ☆17Jan 2, 2024Updated 2 years ago
- Classification of genetic variations based on clinical evidence (text)☆10May 21, 2020Updated 5 years ago
- R for webscraping (Pubmed Central)☆11Aug 25, 2015Updated 10 years ago
- Build a map of genes present across a set of microbial genomes☆18Jan 23, 2026Updated last month
- plasmidVerify: plasmid contig verification tool☆15Apr 30, 2020Updated 5 years ago
- This BLENDER has been sunsetted☆16Sep 27, 2024Updated last year
- AC-DIAMOND is a DNA-protein alignment tool☆16Oct 11, 2023Updated 2 years ago
- 汇集了来自 Gemini (NanoBanana) 、Midjourney、GPT、Flux、Grok以及 Seedream 等多个主流 AI 模型的优质提示词(Prompts)。☆43Feb 14, 2026Updated 2 weeks ago
- YAGCloser: Yet-Another-Gap-Closer based on spanning of long reads.☆12Nov 6, 2025Updated 3 months ago
- MetaCluster: An Open-Source Python Library for Metaheuristic-based Clustering Problems☆16Aug 17, 2025Updated 6 months ago
- Insights into the inner workings of transformer models for protein function prediction☆14Feb 9, 2024Updated 2 years ago
- ☆21Feb 16, 2026Updated last week
- Transfer learning for Mutation Effect Prediction☆17Feb 13, 2024Updated 2 years ago
- Code for the paper "OneProt: Towards Multi-Modal Protein Foundation Models"☆21Oct 31, 2025Updated 4 months ago
- Matlab Evaluation codes for the 2nd CAFA experiment☆14Nov 27, 2023Updated 2 years ago
- FastContext is an optimized Java implementation of ConText algorithm (https://www.ncbi.nlm.nih.gov/pubmed/23920642).☆11Oct 19, 2021Updated 4 years ago
- ccfind - circular complete genome finder with clues of terminal redundancy☆16Feb 10, 2026Updated 2 weeks ago
- BlasterJS - an open source JS library to display Blast results☆20Oct 18, 2019Updated 6 years ago
- PhyloAln: a convenient reference-based tool to align sequences and high-throughput reads for phylogeny and evolution in the omic era☆17Nov 28, 2025Updated 3 months ago
- ☆20Apr 13, 2022Updated 3 years ago