splatlab / squeakrLinks
Squeakr: An Exact and Approximate k -mer Counting System
☆85Updated 3 months ago
Alternatives and similar repositories for squeakr
Users that are interested in squeakr are comparing it to the libraries listed below
Sorting:
- utilities for indexing and sequence extraction from FASTA files☆59Updated 4 years ago
- Estimating k-mer coverage histogram of genomics data☆78Updated last year
- A method for variant graph genotyping based on exact alignment of k-mers☆86Updated 6 years ago
- RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…☆66Updated 2 years ago
- ⛓ Long Interval Nucleotide K-mer Scaffolder☆74Updated 2 months ago
- An efficient index for the colored, compacted, de Bruijn graph☆110Updated 7 months ago
- Genome inference from a population reference graph☆96Updated 2 months ago
- Fast & accurate alignment of barcoded short-reads☆33Updated last year
- Create Bloom filters for a given reference and then use it to categorize sequences☆76Updated 6 months ago
- deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads☆44Updated 2 years ago
- Cosmo is a fast, low-memory DNA assembler using a Succinct (variable order) de Bruijn Graph.☆51Updated last year
- Substring index for paths in a graph☆60Updated last month
- A repository for generating strobemers and evalaution☆78Updated last year
- FALCON-Phase integrates PacBio long-read assemblies with Phase Genomics Hi-C data to create phased, diploid, chromosome-scale scaffolds☆75Updated 4 years ago
- a wee tool for random access into BGZF files.☆84Updated 7 years ago
- A tool for Racon polishing of miniasm assemblies☆75Updated 4 years ago
- ✏️ Genome assembly polishing & SNV detection☆68Updated 3 months ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆54Updated 3 years ago
- 🌈Scaffold genome sequence assemblies using linked or long read sequencing data☆94Updated 6 months ago
- Yet Another Chimeric Read Detector☆80Updated 6 months ago
- 10x Genomics Reads Simulator☆45Updated last year
- REINDEER REad Index for abuNDancE quERy☆58Updated 10 months ago
- Small general purpose library for C and Python with focus on bioinformatics.☆30Updated 2 years ago
- De novo genome assembly and multisample variant calling☆112Updated 6 years ago
- Graph based multi genome aligner☆47Updated 3 years ago
- Standalone C library for assembling Illumina short reads in small regions☆72Updated 2 years ago
- Fast calculations of linkage-disequilibrium in large-scale human cohorts☆43Updated 5 years ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆42Updated last year
- Histosketching Using Little Kmers☆57Updated 2 years ago