Alternatives and similar repositories for ncls

Users that are interested in ncls are comparing it to the libraries listed below

• brentp / interlap
  fast, pure-python interval overlap testing
  ☆52Updated 4 years ago
• biocore-ntnu / kerneltree
  Ultrafast interval trees from the kernel. Deprecated in favor of the NCLS.
  ☆25Updated 6 years ago
• chaimleib / intervaltree
  A mutable, self-balancing interval tree. Queries may be by point, by range overlap, or by range containment.
  ☆659Updated 3 months ago
• kylessmith / ailist
  Augmented Interval Tree implemented in Cython/C
  ☆20Updated 5 months ago
• eaton-lab / toytree
  A minimalist tree plotting library using toyplot graphs
  ☆177Updated 2 months ago
• pycompression / xopen
  Open compressed files in Python
  ☆74Updated last month
• cgat-developers / ruffus
  CGAT-ruffus is a lightweight python module for running computational pipelines
  ☆174Updated 3 years ago
• brentp / quicksect
  a cythonized, extended version of the interval search tree in bx
  ☆30Updated 6 years ago
• sgkit-dev / sgkit
  Scalable genetics toolkit
  ☆257Updated 3 weeks ago
• cggh / scikit-allel
  A Python package for exploring and analysing genetic variation data
  ☆297Updated 3 weeks ago
• ImSoErgodic / py-upset
  A pure-python implementation of the UpSet suite of visualisation methods by Lex, Gehlenborg et al.
  ☆319Updated 7 years ago
• vinlyx / mgzip
  A multi-threading implement of Python gzip module
  ☆55Updated last year
• brentp / fishers_exact_test
  Fishers Exact Test for Python (Cython)
  ☆65Updated 3 months ago
• panoptes-organization / panoptes
  Monitor computational workflows in real time
  ☆74Updated last year
• kvesteri / intervals
  Python tools for handling intervals (ranges of comparable objects).
  ☆109Updated 3 years ago
• jeetsukumaran / DendroPy
  A Python library for phylogenetic scripting, simulation, data processing and manipulation.
  ☆216Updated last week
• tskit-dev / tskit
  Population-scale Ancestral Recombination Graph (ARG) library
  ☆163Updated last week
• JetBrains-Research / snakecharm
  Plugin for PyCharm / IntelliJ IDEA Platform IDEs which adds support for Snakemake language.
  ☆62Updated 2 months ago
• wheretrue / biobear
  Work with bioinformatic files using Arrow, Polars, and/or DuckDB
  ☆186Updated 3 months ago
• lgautier / fastq-and-furious
  Efficient handling of FASTQ files from Python
  ☆51Updated last month
• jnothman / UpSetPlot
  Draw UpSet plots with Matplotlib
  ☆355Updated last year
• eseraygun / python-alignment
  Native Python library for generic sequence alignment
  ☆55Updated 5 years ago
• brentp / pyfasta
  fast, memory-efficient, pythonic (and command-line) access to fasta sequence files
  ☆87Updated 7 years ago
• open2c / bioframe
  Genomic interval operations on Pandas DataFrames
  ☆182Updated this week
• mdshw5 / simplesam
  Simple pure Python SAM parser and objects for working with SAM records
  ☆64Updated 3 years ago
• abdenlab / oxbow
  Oxbow makes genomic data ready for high-performance analytics.
  ☆82Updated this week
• fastlmm / bed-reader
  A library for easy, fast, and efficient reading & writing of PLINK Bed files
  ☆80Updated 2 months ago
• pauldmccarthy / indexed_gzip
  Fast random access of gzip files in Python
  ☆107Updated 3 weeks ago
• uqfoundation / klepto
  persistent caching to memory, disk, or database
  ☆271Updated last week
• LUMC / pytest-workflow
  Configure workflow/pipeline tests using yaml files.
  ☆68Updated 10 months ago