Search Results for "annotation"

This package includes a few programs for rapid functional annotation for metagenomic sequences, including, 1) Gene prediction by FragGeneScan; 2) Similarity search by RAPSearch2; 3) Functional annotation in GO (Gene Ontology) and EC (Enzyme Commission) based on similarity search results; 4) From EC to metabolic pathway reconstruction by MinPath. Inputs: Just sequencing reads (or assemblies) Outputs: Protein-coding genes (or gene fragments); similarity search; functional annotations (in GO and EC); metabolic pathways.

...By using a double-array trie representation, the project emphasizes performance and memory efficiency compared to simpler pointer-heavy trie structures, which can matter a lot for large dictionaries or latency-sensitive services. This makes it a strong fit for tasks like content filtering, entity/term spotting, dictionary-based annotation, or high-throughput log/text processing. In short, it’s a specialized, speed-focused library for industrial-strength multi-keyword matching in Java.

GAKNN is a data mining software for gene annotation data. GAKNN is built with k- Nearest Neighbour algorithm optimized by the genetic algorithm. Gene annotation datasets saved under .csv or .arff formats with Gene Ontology or FunCat categorization can use GAKNN to predict gene functions.