kylessmith / ailistLinks
Augmented Interval Tree implemented in Cython/C
☆20Updated last year
Alternatives and similar repositories for ailist
Users that are interested in ailist are comparing it to the libraries listed below
Sorting:
- ALPACA is a caller for genomic variants (single nucleotide and small indels) from next-generation sequencing data that uses a novel algeb…☆23Updated last year
- a cythonized, extended version of the interval search tree in bx☆30Updated 6 years ago
- Implicit Interval Tree with Interpolation Index☆42Updated 3 years ago
- pyranges/bioframe for polars☆18Updated 2 years ago
- Experimental getopt, gzip reader, FASTA/Q parser and interval queries in nim-lang☆31Updated 5 years ago
- SQL support plugin for Nextflow☆32Updated 4 months ago
- Monitor computational workflows in real time☆73Updated last year
- VCF Zarr Specification☆15Updated 8 months ago
- Load numpy arrays and HDF5 files from VCF (variant call format)☆31Updated 8 years ago
- Rust Backend for PyRanges Operations. More featureful and much faster replacement for the NCLS library☆29Updated last month
- python (cython) wrapper for https://github.com/ryanlayer/giggle for fast interval searching of huge datasets.☆15Updated 7 years ago
- ziglang + htslib☆21Updated 4 years ago
- fast, pure-python interval overlap testing☆52Updated 5 years ago
- WDL plugin for pytest☆49Updated 2 years ago
- Augmented interval list (AIList): a novel data structure for efficient genomic interval search☆23Updated 3 years ago
- The python binding for D4 format☆16Updated 4 years ago
- PySeqArray: data manipulation of whole-genome sequencing variants with SeqArray files in Python (pre-release version)☆14Updated 8 years ago
- pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)☆49Updated 8 years ago
- An open-source, cloud-ready web application for simplified deployment of big data workflows.☆36Updated 8 months ago
- Library for indexing VCF files for random access searches by rsID☆17Updated 6 months ago
- robust matching of small variant datasets using flexible scoring schemes☆11Updated 5 years ago
- python wrapper to dpryan79's bigwig library using cffi☆19Updated 9 years ago
- non-redundant, compressed, journalled, file-based storage for biological sequences☆47Updated 2 months ago
- provides common tools and lookup tables used primarily by the hgvs and uta packages☆24Updated 2 weeks ago
- toolkit for file system virtualisation of random access compressed FASTA, FAI, DICT & TWOBIT files☆22Updated last year
- Write-once-read-many table for large datasets.☆27Updated 2 years ago
- IndexTools is a toolkit for extremely fast NGS analysis based on index files.☆17Updated 3 years ago
- Efficient handling of FASTQ files from Python☆51Updated last month
- Python library that facilitates opening, reading, and writing files (and file-like entities like URLs and streams) agnostic of compressio…☆24Updated 8 months ago
- horizontal pileup☆16Updated 3 years ago