FALCON: experimental PacBio diploid assembler -- Out-of-date -- Please use a binary release: https://github.com/PacificBiosciences/FALCON_unzip/wiki/Binaries
☆205Mar 4, 2022Updated 4 years ago
Alternatives and similar repositories for FALCON
Users that are interested in FALCON are comparing it to the libraries listed below
Sorting:
- Making diploid assembly becomes common practice for genomic study☆30Oct 2, 2017Updated 8 years ago
- A single molecule sequence assembler for genomes large and small.☆695Feb 24, 2026Updated last week
- tools for error correction and working with long read data☆44Dec 1, 2014Updated 11 years ago
- Mostly deprecated. See https://github.com/PacificBiosciences/FALCON_unzip/wiki/Binaries☆31Apr 6, 2018Updated 7 years ago
- Find all significant local alignments between reads☆141Jul 3, 2024Updated last year
- Ultrafast de novo assembly for long noisy reads (though having no consensus step)☆352Jul 19, 2025Updated 7 months ago
- SMRT-SV: Structural variant and indel caller for PacBio reads☆28Feb 21, 2019Updated 7 years ago
- PacBio hybrid error correction through iterative short read consensus☆60May 17, 2019Updated 6 years ago
- PacBio Assembly Tool Suite: Reads in ⇨ Assembly out☆117Sep 11, 2020Updated 5 years ago
- The LACHESIS software, as described in Nature Biotechnology (http://dx.doi.org/10.1038/nbt.2727)☆80Oct 12, 2018Updated 7 years ago
- Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads. http://genome.cshlp.org/content/early/2017/01/18/gr…☆296May 9, 2024Updated last year
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆182Jul 30, 2019Updated 6 years ago
- 3D de novo assembly (3D DNA) pipeline☆222Nov 29, 2023Updated 2 years ago
- Chromosome-level scaffolding using multiple references☆165Sep 8, 2024Updated last year
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆188May 17, 2024Updated last year
- MECAT: an ultra-fast mapping, error correction and de novo assembly tool for single-molecule sequencing reads☆111Oct 2, 2020Updated 5 years ago
- DNA assembler developed on FER (Croatia), RBI (Croatia) and GIS (Singapore)☆18Jan 18, 2016Updated 10 years ago
- Segmental Duplication Assembler (SDA).☆43May 7, 2023Updated 2 years ago
- Mummer alignment tool☆550Feb 4, 2025Updated last year
- A fuzzy Bruijn graph approach to long noisy reads assembly☆39Mar 15, 2017Updated 8 years ago
- Ultra-fast de novo assembler using long noisy reads☆136Feb 24, 2021Updated 5 years ago
- MinHash Alignment Process (MHAP, pronounced MAP): locality-sensitive hashing to detect long-read overlaps and utilities☆98Jun 27, 2022Updated 3 years ago
- Scaffolding genomes using synthetic long read clouds☆20Oct 11, 2016Updated 9 years ago
- Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…☆146Jul 11, 2025Updated 7 months ago
- [IMPORTANT: not for real data analysis, only for algorithm evaluation] fast and accurate alignment tool for PacBio and Nanopore long read…☆125Sep 10, 2018Updated 7 years ago
- The MARVEL assembler☆80Jul 7, 2023Updated 2 years ago
- Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly☆531Sep 27, 2023Updated 2 years ago
- ☆15Jul 3, 2018Updated 7 years ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆307Mar 18, 2024Updated last year
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- Fast and accurate de novo assembler for long reads☆398May 10, 2024Updated last year
- An Oxford Nanopore Basecaller☆70Sep 4, 2021Updated 4 years ago
- Graph based multi genome aligner☆49Sep 17, 2021Updated 4 years ago
- Custom tools to 'facilitate' BioNano Genomics data analysis☆34Oct 22, 2018Updated 7 years ago
- The Dagstuhl Format for Assembly☆13Oct 16, 2017Updated 8 years ago
- variation discovery using long range information in linked-reads☆15Oct 5, 2021Updated 4 years ago
- a Bioinformatics Application for Navigating De novo Assembly Graphs Easily☆666Dec 3, 2022Updated 3 years ago
- Structural variation caller using third generation sequencing☆636Dec 18, 2025Updated 2 months ago
- Graphical Fragment Assembly (GFA) Format Specification☆218Aug 21, 2024Updated last year