Apollo is an assembly polishing algorithm that attempts to correct the errors in an assembly. It can take multiple set of reads in a single run and polish the assemblies of genomes of any size. Described in the Bioinformatics journal paper (2020) by Firtina et al. at https://people.inf.ethz.ch/omutlu/pub/apollo-technology-independent-genome-asse…
☆28May 10, 2020Updated 5 years ago
Alternatives and similar repositories for Apollo
Users that are interested in Apollo are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- AirLift is a tool that updates mapped reads from one reference genome to another. Unlike existing tools, It accounts for regions not shar…☆28May 23, 2024Updated last year
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Aug 24, 2022Updated 3 years ago
- A nextflow pipeline for polishing CLR assemblies☆18Feb 3, 2023Updated 3 years ago
- The shiny app that accompanies the ngsReports R package☆13Jun 10, 2021Updated 4 years ago
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated 11 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- An accurate and ultra-fast hybrid genome assembler☆87Apr 10, 2024Updated 2 years ago
- Shouji is fast and accurate pre-alignment filter for banded sequence alignment calculation. Described in the Bioinformatics journal paper…☆18Jun 3, 2019Updated 6 years ago
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- Chromosome-level scaffolding using multiple references☆166Sep 8, 2024Updated last year
- SneakySnake is the first and the only pre-alignment filtering algorithm that works efficiently and fast on modern CPU, FPGA, and GPU arch…☆56Mar 31, 2023Updated 3 years ago
- Hapo-G is a tool that aims to improve the quality of genome assemblies by polishing the consensus with accurate reads.☆26Oct 24, 2025Updated 5 months ago
- A simple-to-use tool for visualizing and comparing genome contexts for numerous genomes☆18Dec 1, 2025Updated 4 months ago
- uorf4u is a bioinformatics tool for conserved upstream ORF annotation.☆15Sep 16, 2025Updated 7 months ago
- ☆42Updated this week
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆136Feb 22, 2026Updated last month
- Parallel String Graph Construction, Transitive Reduction, and Contig Generation for De Novo Genome Assembly☆16Jun 11, 2024Updated last year
- Source code of the processing-in-memory simulator used in the GRIM-Filter paper published at BMC Genomics in 2018: "GRIM-Filter: Fast See…☆11Feb 5, 2018Updated 8 years ago
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆210Nov 18, 2022Updated 3 years ago
- Long read aligner☆114May 26, 2023Updated 2 years ago
- Source code for the software implementations of the GenASM algorithms proposed in our MICRO 2020 paper: Senol Cali et. al., "GenASM: A Hi…☆31Dec 19, 2022Updated 3 years ago
- Assembler for raw de novo genome assembly of long uncorrected reads.☆35Dec 11, 2019Updated 6 years ago
- an ensemble usage of MAFFT-linsi --add on large datasets☆13May 31, 2024Updated last year
- Alignment-Free methods Adjusted by Neural Network☆13Feb 20, 2020Updated 6 years ago
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- 🔗Genome assembly scaffolder using minimizer graphs☆85Apr 1, 2026Updated 2 weeks ago
- MarginPolish: Graph based assembly polishing☆47Nov 24, 2020Updated 5 years ago
- finshingTool☆54Nov 22, 2016Updated 9 years ago
- BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy…☆47May 10, 2023Updated 2 years ago
- amplicon/smMIP mapping and analysis pipeline☆11Dec 8, 2022Updated 3 years ago
- BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper☆53May 16, 2022Updated 3 years ago
- run-length BWT tools for genomic sequences☆19May 19, 2022Updated 3 years ago
- Assembled Genomes Compressor☆179Mar 26, 2026Updated 3 weeks ago
- Long-read splice alignment with high accuracy☆64Sep 26, 2024Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Protein hint generation pipeline for gene finding in eukaryotic genomes☆61Oct 27, 2023Updated 2 years ago
- Evaluate variant calls and its combination with k-mer multiplicity☆68Dec 2, 2022Updated 3 years ago
- MEM mapper prototype☆13Nov 28, 2020Updated 5 years ago
- A fast tool for hybrid genome assembly of long and short reads☆78Apr 22, 2020Updated 5 years ago
- General purpose utility related to GAF files☆29Updated this week
- Chromosome Scale Assembler: A high-throughput chromosome scale genome assembly pipeline for vertebrate genomes☆10Oct 16, 2024Updated last year
- ☆17Jul 7, 2025Updated 9 months ago