althonos/pycomsaCython
Cython bindings and Python interface to CoMSA, a compressor for multiple-sequence alignments.
(2 stars) (0 forks) (0 indexed issues) (0 open good first issues)
Repositories
althonos repositories
althonos/pyfamsaCython
Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
(43 stars) (4 forks) (0 indexed issues) (0 open good first issues)
althonos/pyfastaniCython
Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
(24 stars) (2 forks) (0 indexed issues) (0 open good first issues)
althonos/pyhcrfPython
A hidden conditional random field (HCRF) implementation in Python.
(3 stars) (1 fork) (0 indexed issues) (0 open good first issues)
althonos/pyhmmerCython
Cython bindings and Python interface to HMMER3.
(164 stars) (17 forks) (0 indexed issues) (0 open good first issues)
althonos/pyinfernalCython
Cython bindings and Python interface to Infernal 1.1.
(9 stars) (0 forks) (0 indexed issues) (0 open good first issues)
althonos/pyjessCython
Cython bindings and Python interface to Jess, a 3D template matching software for protein structures. Now 10x faster!
(11 stars) (0 forks) (0 indexed issues) (0 open good first issues)
althonos/pymemesuiteCython
Cython bindings and Python interface to the MEME suite, a collection of tools for the analysis of sequence motifs.
(17 stars) (0 forks) (0 indexed issues) (0 open good first issues)
althonos/pymuscle5Cython
Cython bindings and Python interface to MUSCLE v5, a highly efficient and accurate multiple sequence alignment software.
(25 stars) (2 forks) (0 indexed issues) (0 open good first issues)
althonos/pyncbitkCython
Cython bindings and Python interface to the NCBI C++ ToolKit (including BLAST+).
(11 stars) (0 forks) (0 indexed issues) (0 open good first issues)
althonos/pyopalCython
Cython bindings and Python interface to Opal, a SIMD-accelerated database search aligner.
(11 stars) (1 fork) (0 indexed issues) (0 open good first issues)
althonos/pyorthoaniPython
A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
(36 stars) (4 forks) (0 indexed issues) (0 open good first issues)
althonos/pyphymlCython
Cython bindings and Python interface to PhyML 3.
(0 stars) (0 forks) (0 indexed issues) (0 open good first issues)
althonos/pyrodigalCython
Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
(189 stars) (10 forks) (0 indexed issues) (0 open good first issues)
althonos/pyrodigal-gvPython
A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.
(23 stars) (4 forks) (0 indexed issues) (0 open good first issues)
althonos/pysamCython
Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight wrapper of the HTSlib API, the same one that powers samtools, bcftools, and tabix.
(0 stars) (0 forks) (0 indexed issues) (0 open good first issues)
althonos/pyskaniRust
PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
(29 stars) (2 forks) (0 indexed issues) (0 open good first issues)
althonos/pyswrdCython
Cython bindings and Python interface to SWORD (Smith Waterman On Reduced Database), a heuristic method for fast database search.
(5 stars) (0 forks) (0 indexed issues) (0 open good first issues)
althonos/pysylphRust
PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
(21 stars) (0 forks) (0 indexed issues) (0 open good first issues)
althonos/pytantanCython
Cython bindings and Python interface to Tantan, a fast method for identifying repeats in DNA and protein sequences.
(3 stars) (1 fork) (0 indexed issues) (0 open good first issues)