pyranges / nclsLinks
NCLS. Basically a static interval-tree that is silly fast for both construction and lookups. Deprecated but maintained.
☆223Updated 2 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 4 years ago
- Open compressed files in Python☆76Updated 4 months ago
- Augmented Interval Tree implemented in Cython/C☆20Updated 8 months ago
- 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.☆146Updated 5 years ago
- CGAT-ruffus is a lightweight python module for running computational pipelines☆174Updated 4 years ago
- Ultrafast interval trees from the kernel. Deprecated in favor of the NCLS.☆25Updated 6 years ago
- A minimalist tree plotting library using toyplot graphs☆179Updated last week
- Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.☆62Updated last month
- Configure workflow/pipeline tests using yaml files.☆69Updated last year
- A mutable, self-balancing interval tree. Queries may be by point, by range overlap, or by range containment.☆668Updated 6 months ago
- Workflow Description Language developer tools & local runner☆194Updated last month
- Scalable genetics toolkit☆262Updated 2 months ago
- pyranges/bioframe for polars☆18Updated 2 years ago
- A pure-python implementation of the UpSet suite of visualisation methods by Lex, Gehlenborg et al.☆319Updated 7 years ago
- Easily map Python functions onto a cluster using a DRMAA-compatible grid engine like Sun Grid Engine (SGE).☆84Updated 2 years ago
- A multi-threading implement of Python gzip module☆55Updated 2 years ago
- Fishers Exact Test for Python (Cython)☆66Updated 6 months ago
- A Python package for exploring and analysing genetic variation data☆298Updated 2 weeks ago
- Python package for string algorithms ➰☆48Updated 8 months ago
- Monitor computational workflows in real time☆73Updated last year
- Python wrapper around the C DRMAA library.☆108Updated 6 years ago
- Slides and demos from our SciPyConf 2019 talk☆13Updated 3 years ago
- Draw UpSet plots with Matplotlib☆363Updated last year
- Python translation of the hybrid dynamicTreeCut method as created by Peter Langfelder and Bin Zhang.☆40Updated 4 years ago
- Pandas DataFrames for phylogenetics☆74Updated 4 years ago
- Genomic interval operations on Pandas DataFrames☆183Updated this week
- A Python library for phylogenetic scripting, simulation, data processing and manipulation.☆222Updated 3 months ago
- Faster zlib and gzip compatible compression and decompression by providing python bindings for the isa-l library.☆52Updated last week
- cython wrapper for khash☆29Updated last year