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Search results for python sequence alignment
python
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sequence-alignment
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35 search results found
Biopython
⭐
3,918
Official git repository for Biopython (originally converted from CVS)
Jcvi
⭐
650
Python library to facilitate genome assembly, annotation, and comparative genomics
Edlib
⭐
421
Lightweight, super fast C/C++ (& Python) library for sequence alignment using edit (Levenshtein) distance.
Bistring
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360
Bidirectionally transformed strings
Buddysuite
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105
Bioinformatics toolkits for manipulating sequence, alignment, and phylogenetic tree files
Deepsequence
⭐
83
A generative latent variable model for biological sequence families.
Deepblast
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80
Neural Networks for Protein Sequence Alignment
Cogent3
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79
Comparative Genomics Toolkit 3
Pymod
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61
PyMod 3 - sequence similarity searches, multiple sequence/structure alignments, and homology modeling within PyMOL.
Uta
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59
Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image
Viralmsa
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50
Reference-guided multiple sequence alignment of viral genomes
Clipkit
⭐
44
a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference
Pymsaviz
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41
MSA(Multiple Sequence Alignment) visualization python package for sequence analysis
Sequence_align
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39
Efficient implementations of Needleman-Wunsch and other sequence alignment algorithms written in Rust with Python bindings via PyO3.
Python Alignment
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30
Native Python library for generic sequence alignment
Blast Bioinfor Tool
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30
Python implementation of Basic Local Alignment Search Tool (BLAST) , which is the core algorithm in sequence alignment for genomes.
Align
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28
sequence alignment. global, local, glocal.
Orthoevolution
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28
An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵
Mdciao
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26
mdciao: Analysis of Molecular Dynamics Simulations Using Residue Neighborhoods
Pdbcolor
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24
Python code to color a PDB structure based on parameters from a multiple sequence alignment
Rnaseq Pipeline
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18
RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.
Pyfamsa
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17
Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
Tredparse
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17
TREDPARSE: HLI Short Tandem Repeat (STR) caller
Conkit
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16
Contact Prediction ToolKit
Raxml_ascbias
⭐
11
Script for removing or counting invariant sites for the RAxML ascertainment bias corrections
Seqanpy
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10
Fast pairwise sequence alignment using SeqAn, in Python.
Indelphi Dataprocessinganalysis
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8
Data Processing, Modeling and Analysis scripts for CRISPR-inDelphi
Tmscoring
⭐
8
Python implementation of the TMscore program
Polya
⭐
7
Automatically Adjudicate Any And All Arbitrary Annotations, Astutely Adjoin Abutting Alignments, And Also Amputate Anything Amiss (AAAAAAAAAAAAAAAA)
Sequoya
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7
Solving Multiple Sequence Alignment (MSA) problems with multi-objective metaheuristics
Bioconda Primedrpa
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7
Puma
⭐
7
Papillomavirus genome annotation tool
Flutile
⭐
7
flu utilities
Pymsa
⭐
7
Scoring multiple sequence alignments with Python
Periodicity Research
⭐
7
The research of accuracy of searching cycles methods in symbolic sequences (time series) with presence of random noises.
Pyopal
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6
Cython bindings and Python interface to Opal, a SIMD-accelerated database search aligner.
Msa_trimmer
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5
Straightforward & minimalistic removal of poorly aligned regions in sequence alignments.
Seq Setnet
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5
Pairdist
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5
Creates a neighbor-joining tree from a set of sequences, using maximum likelihood distances based on pairwise sequence alignment
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