lh3 / gffio
☆32Updated 2 years ago
Alternatives and similar repositories for gffio:
Users that are interested in gffio are comparing it to the libraries listed below
- R package and wrapper functions for identifying serial structural variations from genome assemblies☆26Updated 4 months ago
- MEMO: MEM-based pangenome indexing for k-mer queries☆18Updated 8 months ago
- Lightweight mosaic/somatic SV caller for long reads (WIP)☆29Updated 2 months ago
- Extracts subgraphs or components from a graph in GFA format☆23Updated 2 months ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 9 months ago
- General purpose utility related to GAF files☆22Updated 3 weeks ago
- Long read aligner for cyclic and acyclic pangenome graphs☆36Updated last year
- Identification of segmental duplications in the genome☆26Updated 2 years ago
- genomic alignment similarity search tool☆19Updated 8 months ago
- transposable element typing pipeline☆17Updated 11 months ago
- A comparative genome scaffolding tool☆17Updated 6 years ago
- Kmer based genotyper for short reads.☆23Updated 3 years ago
- CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies☆24Updated 4 years ago
- Correcting errors in noisy long reads using variation graphs☆51Updated 2 years ago
- An algorithm for centromere assembly using long error-prone reads☆26Updated 3 years ago
- Minimizer-based assembly scaffolding and mapping using long reads☆36Updated 4 months ago
- ☆22Updated 5 months ago
- Scaffolding with assembly likelihood optimization☆20Updated 4 years ago
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆34Updated 2 months ago
- Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.☆29Updated 6 years ago
- recompute GFA link overlaps☆25Updated 2 years ago
- Hapo-G is a tool that aims to improve the quality of genome assemblies by polishing the consensus with accurate reads.☆25Updated 10 months ago
- A module for improving the insertion sequences of structural variant calls☆30Updated 3 years ago
- ☆41Updated 2 months ago
- Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes☆38Updated 4 months ago
- Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)☆27Updated last month
- use variant nesting information to flter overlapping sites from vg deconstruct output☆26Updated 7 months ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆36Updated last month
- A web-based, interactive pangenome visualization tool☆21Updated last year
- A tool for recovering synteny blocks from multiple alignment☆29Updated 3 years ago