Naive de Bruijn graph implementation in python
☆37Oct 2, 2017Updated 8 years ago
Alternatives and similar repositories for dbg
Users that are interested in dbg are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Streaming algorithm for computing kmer statistics for massive genomics datasets☆54Feb 18, 2020Updated 6 years ago
- A demo implementation of Succinct de Bruijn Graphs.☆25Jun 30, 2013Updated 12 years ago
- Index and query k-mer matrices in BGZF☆12Apr 30, 2018Updated 7 years ago
- FM-index representation of a de Bruijn graph☆26Aug 7, 2017Updated 8 years ago
- Non-parametric structural variant genotyper☆15Nov 18, 2021Updated 4 years ago
- de Bruijn CompAction in Low Memory☆23Jan 15, 2016Updated 10 years ago
- Experimental getopt, gzip reader, FASTA/Q parser and interval queries in nim-lang☆31Apr 20, 2020Updated 5 years ago
- modular k-mer count matrix and Bloom filter construction for large read collections☆86Updated this week
- Building the compacted de Bruijn graph efficiently from references or reads.☆92Feb 26, 2026Updated 3 weeks ago
- Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs☆223Oct 23, 2025Updated 5 months ago
- Detects human contamination in bam files☆16Sep 10, 2020Updated 5 years ago
- Unfazed by genomic variant phasing☆27May 26, 2024Updated last year
- Partitioning and analysis methods for large, complex sequence datasets☆38Oct 17, 2018Updated 7 years ago
- A comprehensive and intelligent clinical phasing tool☆14Dec 3, 2022Updated 3 years ago
- Paint genomes with taxa-specific k-mer probabilities☆15Apr 4, 2022Updated 3 years ago
- This is an updated mirror of the original PacBio Read Simulator☆39Mar 30, 2018Updated 7 years ago
- ☆24Updated this week
- Components of genome sequence assembly tools☆21Mar 30, 2022Updated 3 years ago
- ☆13Sep 30, 2023Updated 2 years ago
- Improved Phased Assembler☆28Mar 11, 2022Updated 4 years ago
- Core library of the Genome Analysis Toolbox with de-Bruijn graph☆65Feb 1, 2025Updated last year
- Deep learning in genomics☆20Jan 26, 2019Updated 7 years ago
- Reducing reference bias using multiple population reference genomes☆34May 27, 2024Updated last year
- k-mer counting software☆40Feb 8, 2022Updated 4 years ago
- This repository is deprecated, please use the link to the right.☆23Dec 11, 2018Updated 7 years ago
- De Bruijn graph construction for large k.☆17Aug 31, 2021Updated 4 years ago
- Filter of Pairwise Alignement☆44Jan 31, 2022Updated 4 years ago
- deBGR: An Efficient and Near-Exact Representation of the Weighted de Bruijn Graph☆31Jan 19, 2021Updated 5 years ago
- A collection of bioinformatics algorithms☆12Aug 20, 2022Updated 3 years ago
- horizontal pileup☆16Nov 11, 2022Updated 3 years ago
- The first CHM1 paper (Li, 2014)☆25Jul 9, 2014Updated 11 years ago
- Variational Auto Encoders for learning binding signatures of transcription factors☆14Mar 14, 2024Updated 2 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…☆28May 23, 2024Updated last year
- ☆13Nov 15, 2017Updated 8 years ago
- ⛰ covtobed | Convert the coverage track from a BAM file into a BED file☆44Nov 6, 2025Updated 4 months ago
- Copy number estimation of highly duplicated sequences☆10Aug 15, 2017Updated 8 years ago
- PISCES is a pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control assessment of RNAseq libraries using …☆30Jun 17, 2025Updated 9 months ago
- Tool to estimate deltas for sequence sets and answer questions about relative contribution☆21Mar 25, 2025Updated 11 months ago
- Practical Dynamic de Bruijn Graphs☆18Oct 1, 2020Updated 5 years ago