pyranges / nclsLinks
NCLS. Basically a static interval-tree that is silly fast for both construction and lookups. Deprecated but maintained.
☆224Updated 5 months ago
Alternatives and similar repositories for ncls
Users that are interested in ncls are comparing it to the libraries listed below
Sorting:
- fast, pure-python interval overlap testing☆52Updated 5 years ago
- Open compressed files in Python☆80Updated 2 months ago
- Augmented Interval Tree implemented in Cython/C☆20Updated 10 months ago
- CGAT-ruffus is a lightweight python module for running computational pipelines☆175Updated 4 years ago
- Python wrapper around the C DRMAA library.☆108Updated 6 years ago
- Configure workflow/pipeline tests using yaml files.☆70Updated last year
- a cythonized, extended version of the interval search tree in bx☆30Updated 6 years ago
- Tool to easily start up an IPython cluster on different schedulers.☆147Updated 5 years ago
- Slides and demos from our SciPyConf 2019 talk☆13Updated 4 years ago
- Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.☆62Updated 3 months ago
- Workflow Description Language developer tools & local runner☆202Updated last month
- A minimalist tree plotting library using toyplot graphs☆184Updated 2 weeks ago
- Ultrafast interval trees from the kernel. Deprecated in favor of the NCLS.☆26Updated 6 years ago
- A mutable, self-balancing interval tree. Queries may be by point, by range overlap, or by range containment.☆677Updated 9 months ago
- Scalable genetics toolkit☆270Updated 2 months ago
- pyranges/bioframe for polars☆18Updated 2 years ago
- A multi-threading implement of Python gzip module☆57Updated 2 years ago
- Faster zlib and gzip compatible compression and decompression by providing python bindings for the isa-l library.☆54Updated 3 months ago
- Easily map Python functions onto a cluster using a DRMAA-compatible grid engine like Sun Grid Engine (SGE).☆84Updated 2 years ago
- Oxbow makes genomic data ready for high-performance analytics.☆144Updated last week
- Monitor computational workflows in real time☆74Updated last year
- Python package for string algorithms ➰☆50Updated 11 months ago
- A Python library for phylogenetic scripting, simulation, data processing and manipulation.☆225Updated last week
- A pure-python implementation of the UpSet suite of visualisation methods by Lex, Gehlenborg et al.☆321Updated 7 years ago
- Fishers Exact Test for Python (Cython)☆66Updated 8 months ago
- Python translation of the hybrid dynamicTreeCut method as created by Peter Langfelder and Bin Zhang.☆40Updated 4 years ago
- A Python package for exploring and analysing genetic variation data☆306Updated last week
- fast, memory-efficient, pythonic (and command-line) access to fasta sequence files☆87Updated 8 years ago
- Draw UpSet plots with Matplotlib☆373Updated last year
- A declarative interactive genomics visualization library for Python.☆232Updated 2 weeks ago