Algorithm for secondary de novo genome assembly guided by closely related references
☆168Feb 4, 2020Updated 6 years ago
Alternatives and similar repositories for AlignGraph
Users that are interested in AlignGraph are comparing it to the libraries listed below
Sorting:
- Online material and code base for the article Coordinates and Intervals in Graph Based Reference Genomes☆11May 2, 2017Updated 8 years ago
- misFinder: Identify mis-assemblies in an unbiased manner using reference and paired-end reads☆10Oct 17, 2015Updated 10 years ago
- High-performance error correction for Illumina resequencing data☆74May 31, 2016Updated 9 years ago
- Genome assembly scaffolding using information from paired-end/mate-pair libraries, long reads, and synteny to closely related species.☆24Dec 6, 2018Updated 7 years ago
- 🔗Genome assembly scaffolder using minimizer graphs☆85Mar 10, 2026Updated last week
- The final version 2 release of our software to detect core genes in eukaryotic genomes☆30Mar 31, 2015Updated 10 years ago
- Combining de novo and reference-guided assembly with Scaffold_builder☆20Oct 8, 2021Updated 4 years ago
- Chromosome-level scaffolding using multiple references☆165Sep 8, 2024Updated last year
- DNA assembler developed on FER (Croatia), RBI (Croatia) and GIS (Singapore)☆18Jan 18, 2016Updated 10 years ago
- a fork of the gap-closing pipeline PBJelly☆15Jan 7, 2019Updated 7 years ago
- de Bruijn Graph-based read aligner☆35Sep 3, 2018Updated 7 years ago
- OrthoFiller: Identifying missing annotations for evolutionarily conserved genes.☆22Dec 1, 2022Updated 3 years ago
- Location of structural errors in a genome assembly and structural variations between a pair of genomes☆11Sep 27, 2019Updated 6 years ago
- GAPPadder is tool for closing gaps on draft genomes with short sequencing data☆28Jun 1, 2017Updated 8 years ago
- ☆10Jun 9, 2020Updated 5 years ago
- A genome assembly assessment pipeline.☆38Nov 20, 2023Updated 2 years ago
- De novo genome assembly and multisample variant calling☆112Mar 28, 2019Updated 6 years ago
- The Dagstuhl Format for Assembly☆13Oct 16, 2017Updated 8 years ago
- Scaffolding with assembly likelihood optimization☆21Dec 14, 2020Updated 5 years ago
- A draft genome scaffolder that uses multiple reference genomes in a graph-based approach.☆45Feb 17, 2021Updated 5 years ago
- de novo targeted gene assembly☆22Apr 16, 2021Updated 4 years ago
- A fast constructor of the compressed de Bruijn graph from many genomes☆42Nov 27, 2025Updated 3 months ago
- assembly evaluation tool☆35May 11, 2022Updated 3 years ago
- FALCON-Phase integrates PacBio long-read assemblies with Phase Genomics Hi-C data to create phased, diploid, chromosome-scale scaffolds☆72Nov 12, 2020Updated 5 years ago
- ⛓ Long Interval Nucleotide K-mer Scaffolder☆73Mar 13, 2026Updated last week
- A scaffold assembling pipeline for stLFR reads.☆14Mar 15, 2021Updated 5 years ago
- Derives consensus sequences from a set of long noisy reads by clustering and error correction.☆16Jul 20, 2021Updated 4 years ago
- Fast and memory-efficient sequencing error corrector☆94Jan 4, 2026Updated 2 months ago
- Compare assembly graph file formats☆16Jul 23, 2015Updated 10 years ago
- long-read depth breaking☆11Apr 19, 2018Updated 7 years ago
- BESST - scaffolder for genomic assemblies☆58Jul 6, 2023Updated 2 years ago
- SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.☆23Sep 18, 2025Updated 6 months ago
- The MafFilter genome alignment processor☆19Jan 6, 2026Updated 2 months ago
- RegCloser is a genome gap-closing tool based on the robust regression approach, which is conceptually applicable to de novo assembly of N…☆15Apr 22, 2024Updated last year
- EXPERIMENTAL implementation of side graph☆10Apr 16, 2015Updated 10 years ago
- KAUST Assembly Read Error Correction Tool☆15Aug 15, 2015Updated 10 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆49Jan 14, 2026Updated 2 months ago
- Graphical Fragment Assembly (GFA) Format Specification☆218Aug 21, 2024Updated last year
- de Bruijn Graph REAd mapping Tool☆14Jul 12, 2017Updated 8 years ago