kasravnd / SuffixTree
Optimized implementation of suffix tree in python using Ukkonen's algorithm.
☆52Updated 2 years ago
Alternatives and similar repositories for SuffixTree
Users that are interested in SuffixTree are comparing it to the libraries listed below
Sorting:
- Suffix tree for string searching☆161Updated 3 years ago
- Python implementation of Suffix Trees and Generalized Suffix Trees.☆127Updated 4 years ago
- Ukkonen's suffix tree algorithm, a complete version implemented in Python☆26Updated last year
- graph-tool - Efficient network analysis☆101Updated last year
- SNAP Python code, SWIG related files☆300Updated 2 years ago
- C++ implementation of FM Index data structure wrapped in Python☆13Updated 2 years ago
- fast, pure-python interval overlap testing☆52Updated 4 years ago
- Python utilities for Cytoscape and Cytoscape.js☆175Updated 3 years ago
- Machine-curated database of genetic disease and genome-wide association studies☆56Updated 6 years ago
- The Nested Containment List for Python. Basically a static interval-tree that is silly fast for both construction and lookups.☆221Updated 8 months ago
- Fast hierarchical clustering routines for R and Python.☆144Updated last week
- Pilot to work with dynamic visualization by using python☆59Updated 5 years ago
- PyCogent: Official repository for software and unit tests☆91Updated 4 years ago
- dna2vec: Consistent vector representations of variable-length k-mers☆185Updated 2 years ago
- Python bindings to Succinct Data Structure Library 2.0☆31Updated 5 years ago
- FM-index representation of a de Bruijn graph☆27Updated 7 years ago
- Wiki form of BLAST documentation from NCBI☆16Updated 8 years ago
- ☆51Updated 4 years ago
- FM-Index full-text index implementation using RRR Wavelet trees (libcds) and fast suffix sorting (libdivsufsort) including experimental r…☆107Updated 10 years ago
- Relative data structures based on the BWT☆12Updated 7 years ago
- D3 JavaScript networkx Graphs in Python☆51Updated 7 years ago
- An optimal space run-length Burrows-Wheeler transform full-text index☆64Updated last year
- A collection of Python scripts that implement various graph clustering algorithms, specifically for identifying protein complexes from pr…☆93Updated 6 years ago
- A pure python implementation of locality sensitive hashing for text documents☆85Updated 9 years ago
- Draw NetworkX graphs using pydot/graphviz, with support for IPython notebooks.☆118Updated 5 years ago
- MAW: a suite on the computation and application of Minimal Absent Words☆16Updated 3 years ago
- pysster: Learning Sequence And Structure Motifs In Biological Sequences Using Convolutional Neural Networks☆86Updated 5 years ago
- A package for combining multiple partitions into a consolidated clustering. The combinatorial optimization problem of obtaining such a co…☆70Updated 2 years ago
- A python package for pathway visualization☆38Updated 4 years ago
- BWT-based index for graphs☆71Updated 2 months ago