SPAdes Genome Assembler
☆919Mar 17, 2026Updated this week
Alternatives and similar repositories for spades
Users that are interested in spades are comparing it to the libraries listed below
Sorting:
- Genome assembly evaluation tool☆507Nov 14, 2024Updated last year
- Rapid prokaryotic genome annotation☆961Jan 6, 2026Updated 2 months ago
- hybrid assembly pipeline for bacterial genomes☆634Jul 25, 2024Updated last year
- Ultra-fast and memory-efficient (meta-)genome assembler☆698Oct 28, 2025Updated 4 months ago
- The second version of the Kraken taxonomic sequence classification system☆879Mar 10, 2026Updated last week
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆585Feb 21, 2026Updated last month
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆404Mar 2, 2026Updated 2 weeks ago
- De novo assembler for single molecule sequencing reads using repeat graphs☆909May 2, 2025Updated 10 months ago
- Accelerated BLAST compatible local sequence aligner.☆1,256Mar 7, 2026Updated 2 weeks ago
- Mass screening of contigs for antimicrobial and virulence genes☆481Jan 31, 2026Updated last month
- Prodigal Gene Prediction Software☆529Jan 23, 2024Updated 2 years ago
- Rapid haploid variant calling and core genome alignment☆575Dec 12, 2025Updated 3 months ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆612Feb 18, 2026Updated last month
- Fast Whole-Genome Similarity (ANI) Estimation☆449Dec 16, 2025Updated 3 months ago
- MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data☆395Updated this week
- customizable pipeline to identify viral sequences from (meta)genomic data☆283Nov 28, 2024Updated last year
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆257Dec 13, 2025Updated 3 months ago
- Pilon is an automated genome assembly improvement and variant detection tool☆378Apr 10, 2022Updated 3 years ago
- Rapid comparison and dereplication of genomes☆329Nov 10, 2025Updated 4 months ago
- Fast genome-wide functional annotation through orthology assignment☆708Jun 18, 2025Updated 9 months ago
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆667Dec 3, 2022Updated 3 years ago
- A fast and sensitive gapped read aligner☆776Mar 7, 2026Updated 2 weeks ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,143Feb 13, 2026Updated last month
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,303Updated this week
- Mummer alignment tool☆551Feb 4, 2025Updated last year
- Read alignment statistics for metagenomics☆392Updated this week
- Rapid large-scale prokaryote pan genome analysis☆374Nov 3, 2025Updated 4 months ago
- Bacterial ribosomal RNA predictor☆283Jan 10, 2026Updated 2 months ago
- Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)☆1,715Mar 22, 2025Updated last year
- MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis☆467Jul 28, 2023Updated 2 years ago
- Fast genome and metagenome distance estimation using MinHash☆436Sep 19, 2025Updated 6 months ago
- Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes☆323Updated this week
- A single molecule sequence assembler for genomes large and small.☆699Feb 24, 2026Updated 3 weeks ago
- Next generation sequencing reads de novo assembler.☆239Sep 20, 2025Updated 6 months ago
- Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…☆339Updated this week
- A grammar of graphics for comparative genomics☆748Feb 23, 2026Updated 3 weeks ago
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,530Feb 27, 2026Updated 3 weeks ago
- Interactively explore metagenomes and more from a web browser.☆496Dec 22, 2021Updated 4 years ago
- quality filtering tool for long reads☆395Sep 17, 2025Updated 6 months ago