althonos/pycomsaCython
Cython bindings and Python interface to CoMSA, a compressor for multiple-sequence alignments.
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althonos/pyfamsaCython
Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
(46 star) (5 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyfastaniCython
Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
(25 star) (2 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyhcrfPython
A hidden conditional random field (HCRF) implementation in Python.
(3 star) (1 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyhmmerCython
Cython bindings and Python interface to HMMER3.
(168 star) (19 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyinfernalCython
Cython bindings and Python interface to Infernal 1.1.
(10 star) (0 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyjessCython
Cython bindings and Python interface to Jess, a 3D template matching software for protein structures. Now 10x faster!
(11 star) (0 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pymemesuiteCython
Cython bindings and Python interface to the MEME suite, a collection of tools for the analysis of sequence motifs.
(18 star) (0 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pymuscle5Cython
Cython bindings and Python interface to MUSCLE v5, a highly efficient and accurate multiple sequence alignment software.
(25 star) (2 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyncbitkCython
Cython bindings and Python interface to the NCBI C++ ToolKit (including BLAST+).
(11 star) (0 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyopalCython
Cython bindings and Python interface to Opal, a SIMD-accelerated database search aligner.
(11 star) (1 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyorthoaniPython
A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
(37 star) (4 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyphymlCython
Cython bindings and Python interface to PhyML 3.
(0 star) (0 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyrodigalCython
Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
(189 star) (11 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyrodigal-gvPython
A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.
(24 star) (4 fork) (0 issue indicizzate) (0 good first issue aperte)
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 star) (0 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyskaniRust
PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
(29 star) (2 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pyswrdCython
Cython bindings and Python interface to SWORD (Smith Waterman On Reduced Database), a heuristic method for fast database search.
(5 star) (0 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pysylphRust
PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
(20 star) (0 fork) (0 issue indicizzate) (0 good first issue aperte)
althonos/pytantanCython
Cython bindings and Python interface to Tantan, a fast method for identifying repeats in DNA and protein sequences.
(4 star) (1 fork) (0 issue indicizzate) (0 good first issue aperte)