kylessmith / ailist
Augmented Interval Tree implemented in Cython/C
☆19Updated last week
Alternatives and similar repositories for ailist:
Users that are interested in ailist are comparing it to the libraries listed below
- VCF Zarr Specification☆12Updated 6 months ago
- Load numpy arrays and HDF5 files from VCF (variant call format)☆31Updated 7 years ago
- Implicit Interval Tree with Interpolation Index☆41Updated 2 years ago
- Experimental getopt, gzip reader, FASTA/Q parser and interval queries in nim-lang☆32Updated 4 years ago
- PySeqArray: data manipulation of whole-genome sequencing variants with SeqArray files in Python (pre-release version)☆14Updated 7 years ago
- horizontal pileup☆16Updated 2 years ago
- This work presents a way to write extensions in Rust and use them in Python, using sourmash as an example.☆20Updated 6 years ago
- convert reads from repeated measures of same piece of DNA into spaced matricies for deep learners.☆14Updated last year
- ALPACA is a caller for genomic variants (single nucleotide and small indels) from next-generation sequencing data that uses a novel algeb…☆23Updated 2 months ago
- drunk on perbase pileups and lua expressions☆17Updated last year
- Lightweight Python interfaces for reading, writing, and querying Genomic Regions (BED)☆14Updated last month
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Updated 7 months ago
- IndexTools is a toolkit for extremely fast NGS analysis based on index files.☆17Updated 2 years ago
- Python library that facilitates opening, reading, and writing files (and file-like entities like URLs and streams) agnostic of compressio…☆21Updated 3 months ago
- toolkit for file system virtualisation of random access compressed FASTA, FAI, DICT & TWOBIT files☆22Updated 5 months ago
- Index and query k-mer matrices in BGZF☆12Updated 6 years ago
- The python binding for D4 format☆16Updated 3 years ago
- Fast sequencing data quality metrics☆17Updated 3 weeks ago
- ☆22Updated last month
- python wrapper to dpryan79's bigwig library using cffi☆19Updated 8 years ago
- Quality of life improvements for Bioinformatics in Python.☆27Updated this week
- A Go implementation of the strobemers (https://github.com/ksahlin/strobemers)☆14Updated 3 years ago
- Fast interval intersection library☆35Updated this week
- Augmented interval list (AIList): a novel data structure for efficient genomic interval search☆21Updated 2 years ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Updated 4 years ago
- A lightweight Python graphing API for genomic features☆15Updated 2 years ago
- Lacer: Accurate Base Quality Score Recalibration using Linear Algebra☆8Updated 2 years ago
- Samwell: a python package for using genomic files... well☆19Updated 2 years ago
- ziglang + htslib☆20Updated 3 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Updated 3 years ago