AntonBankevich / jumboDB
De Bruijn graph construction for large k.
☆18Updated 3 years ago
Alternatives and similar repositories for jumboDB:
Users that are interested in jumboDB are comparing it to the libraries listed below
- recompute GFA link overlaps☆25Updated 2 years ago
- JTK -- a regional diploid genome assembler☆23Updated 2 months ago
- Generate interactive dotplot from mummer4 output using plotly☆26Updated 4 years ago
- Long read aligner for cyclic and acyclic pangenome graphs☆36Updated last year
- An algorithm for centromere assembly using long error-prone reads☆26Updated 3 years ago
- Align subreads to ccs reads☆13Updated last year
- A lightweight library for working with PAF (Pairwise mApping Format) files☆31Updated 2 years ago
- Wavefront alignment algorithm (WFA) in Golang☆30Updated 2 months ago
- ☆15Updated 4 years ago
- Hidden Markov Model based Copy number caller☆20Updated 2 months ago
- extract MSAs from genome variation graphs☆33Updated 4 years ago
- This repo is deprecated. Please use gfatools instead.☆16Updated 6 years ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Updated 2 years ago
- ☆15Updated 7 years ago
- A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg☆11Updated 5 years ago
- Scaffolding with assembly likelihood optimization☆20Updated 4 years ago
- convert variation graph alignments to coverage maps over nodes☆22Updated last month
- Alignment algorithm for short Illumina reads to a de Bruijn graph☆16Updated 5 years ago
- AirLift is a tool that updates mapped reads from one reference genome to another. Unlike existing tools, It accounts for regions not shar…☆27Updated 7 months ago
- Code to create a PRG from a Multiple Sequence Alignment file☆22Updated 9 months ago
- A comparative genome scaffolding tool☆17Updated 6 years ago
- mSWEEP High-resolution sweep metagenomics using fast probabilistic inference☆13Updated 3 months ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆26Updated last year
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆19Updated 2 months ago
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆24Updated 8 months ago
- ☆12Updated 3 years ago
- Fast in-silico normalization algorithm for NGS data☆22Updated 3 years ago
- Pangenome Graph Variation Format (PGVF)☆18Updated 4 years ago
- ☆25Updated 3 years ago