broadinstitute / pyfrost
Python bindings for Bifrost's compacted colored de Bruijn Graph with a NetworkX-compatible API
☆28Updated last year
Alternatives and similar repositories for pyfrost:
Users that are interested in pyfrost are comparing it to the libraries listed below
- URMAP ultra-fast read mapper☆38Updated 4 years ago
- Classify sequencing reads using MinHash.☆48Updated 5 years ago
- REINDEER REad Index for abuNDancE quERy☆57Updated 8 months ago
- Symmetric DUST for finding low-complexity regions in DNA sequences☆37Updated last year
- Metalign: efficient alignment-based metagenomic profiling via containment min hash☆33Updated last year
- Find Unique genomic Regions☆29Updated 3 weeks ago
- A lightweight library for working with PAF (Pairwise mApping Format) files☆31Updated 2 years ago
- Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.☆47Updated 6 years ago
- A k-mer search engine for all Sequence Read Archive public accessions☆29Updated 5 months ago
- Contains the description of a file format to store kmers and associated values☆32Updated 2 years ago
- ☆28Updated last week
- Haplotype-aware genome assembly toolkit☆29Updated 5 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago
- Benchmark MinION assembler pipelines and publish your results in a heartbeat!☆15Updated 5 years ago
- Oxford Nanopore HDF/Fast5 to CRAM conversion tool☆22Updated 5 years ago
- Population-wide Deletion Calling☆35Updated this week
- a Contig Alignment Tool for Pairwise Assembly Comparison☆13Updated 5 years ago
- Fulgor is a fast and space-efficient colored de Bruijn graph index.☆49Updated last week
- Assembler for raw de novo genome assembly of long uncorrected reads.☆37Updated 5 years ago
- Exact Tandem Repeat Finder (not a TRF replacement)☆48Updated 5 years ago
- The repository keeps the files for an IPython notebook on about how to make a simple genome assembler using python☆31Updated 6 years ago
- A tool to reduce the size of Oxford Nanopore Technologies' datasets without losing information☆31Updated last year
- MIRA sequence assembler☆29Updated 3 months ago
- extract MSAs from genome variation graphs☆33Updated 4 years ago
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated last year
- Metagenomic profiling and phylogenetic distances via common kmers☆42Updated 3 years ago
- Reference-free variant discovery in large eukaryotic genomes☆41Updated 3 years ago
- Python3 module for running MUMmer and reading the output☆32Updated 3 weeks ago
- VariantStore: A Large-Scale Genomic Variant Search Index☆39Updated 3 years ago
- crab go snap snap☆38Updated this week