NCBI Prokaryotic Genome Annotation Pipeline
☆369Feb 9, 2026Updated 2 weeks ago
Alternatives and similar repositories for pgap
Users that are interested in pgap are comparing it to the libraries listed below
Sorting:
- This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.☆58Apr 1, 2025Updated 11 months ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆607Feb 18, 2026Updated last week
- A tool for generating consensus long-read assemblies for bacterial genomes☆340Sep 11, 2025Updated 5 months ago
- hybrid assembly pipeline for bacterial genomes☆634Jul 25, 2024Updated last year
- Rapid prokaryotic genome annotation☆957Jan 6, 2026Updated last month
- SKESA assembler☆124Oct 11, 2024Updated last year
- AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and p…☆351Updated this week
- A flexible pipeline for complete analysis of bacterial genomes☆500Dec 19, 2025Updated 2 months ago
- Rapid haploid variant calling and core genome alignment☆567Dec 12, 2025Updated 2 months ago
- Gene cluster comparison figure generator☆636Dec 22, 2025Updated 2 months ago
- An updated pipeline for pangenome investigation☆345Jan 15, 2026Updated last month
- Rapid large-scale prokaryote pan genome analysis☆371Nov 3, 2025Updated 3 months ago
- Reorients assembled microbial sequences☆133Aug 21, 2025Updated 6 months ago
- A tool to circularize genome assemblies☆253Apr 6, 2024Updated last year
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆580Feb 21, 2026Updated last week
- Mass screening of contigs for antimicrobial and virulence genes☆480Jan 31, 2026Updated last month
- A tool for generating consensus long-read assemblies for bacterial genomes☆217Updated this week
- a short-read polishing tool for long-read assemblies☆207Sep 19, 2025Updated 5 months ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads☆236Dec 29, 2023Updated 2 years ago
- Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…☆402Jan 12, 2026Updated last month
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆403Jun 12, 2025Updated 8 months ago
- Read alignment statistics for metagenomics☆390Jan 16, 2026Updated last month
- Fast Whole-Genome Similarity (ANI) Estimation☆447Dec 16, 2025Updated 2 months ago
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆255Dec 13, 2025Updated 2 months ago
- Fast genome-wide functional annotation through orthology assignment☆701Jun 18, 2025Updated 8 months ago
- Build a partitioned pangenome graph from microbial genomes☆294Updated this week
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆666Dec 3, 2022Updated 3 years ago
- Fast genome and metagenome distance estimation using MinHash☆434Sep 19, 2025Updated 5 months ago
- Pilon is an automated genome assembly improvement and variant detection tool☆377Apr 10, 2022Updated 3 years ago
- Pipeline for metabolic annotation of microbial genomes☆150Mar 20, 2025Updated 11 months ago
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆152Oct 2, 2025Updated 4 months ago
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆211Aug 21, 2024Updated last year
- Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!☆178Jan 7, 2026Updated last month
- Bifrost graph gene caller.☆98Jan 20, 2026Updated last month
- De novo assembler for single molecule sequencing reads using repeat graphs☆905May 2, 2025Updated 9 months ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆131Feb 26, 2024Updated 2 years ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆235Oct 12, 2025Updated 4 months ago
- Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes☆320Feb 19, 2026Updated last week
- A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV☆459Feb 13, 2026Updated 2 weeks ago