Pairwise string alignment in Python (Needleman-Wunsch and Smith-Waterman algorithms)
☆97Apr 13, 2018Updated 8 years ago
Alternatives and similar repositories for pairwise-alignment-in-python
Users that are interested in pairwise-alignment-in-python are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Implementation of Needleman-Wunsch algorithm in Python Using Nested Functions.☆13Jul 10, 2018Updated 7 years ago
- Fast pairwise sequence alignment using SeqAn, in Python.☆13Mar 23, 2019Updated 7 years ago
- Face-meltingly fast, thread-safe, marshalable, unionable, probability- and optimal-size-calculating Bloom filter in go☆32Jun 13, 2025Updated 11 months ago
- SAMtools: A Primer☆13Dec 19, 2014Updated 11 years ago
- a toolset for fast DNA read set matching and assembly using a new type of reduced kmer☆37Aug 4, 2021Updated 4 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- BPNet manuscript code.☆12Dec 1, 2020Updated 5 years ago
- Implementation of needleman wunsch algorithm for global sequence alignment☆10Mar 2, 2019Updated 7 years ago
- A graph-inspired data structure for determining likely chains of sequences from breadcrumbs of evidence☆17Jun 29, 2021Updated 4 years ago
- SeqOthello supports fast coverage query and containment query.☆12May 8, 2019Updated 7 years ago
- Indel-aware consensus for aligned BAM☆21Aug 16, 2025Updated 9 months ago
- ☆13Jun 5, 2015Updated 11 years ago
- Minhash Index Extended to Knead Kmer Intersection☆11Mar 18, 2020Updated 6 years ago
- A library for next generation genomics in Python 3☆18Jun 7, 2018Updated 8 years ago
- A shell script which implements GATK pipeline for variant calling.☆15Nov 30, 2014Updated 11 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- A fast and space-efficient pre-filter for estimating the quantification of very large collections of nucleotide sequences☆15May 31, 2026Updated last week
- A CLI for pairwise alignment of sequences, using both normal and mass based alignment.☆16Jun 3, 2026Updated last week
- Galaxy on AWS Guidance provides all the infrastructure components required to run Galaxy in the cloud and are preconfigured with industry…☆19Feb 10, 2025Updated last year
- RaptorX-Property: a Standalone Package for Protein Structure Property Prediction☆19May 6, 2019Updated 7 years ago
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 6 years ago
- Versatile FASTA/FASTQ demultiplexer.☆33May 29, 2024Updated 2 years ago
- annotation pipeline for microbial genomes and metagenomes☆18Feb 23, 2018Updated 8 years ago
- luigi based workflow for analysising WGS samples collecting from different source. It will auto clustering, annotating gene or species, a…☆10Nov 28, 2023Updated 2 years ago
- A collection of bioinformatics algorithms☆12Aug 20, 2022Updated 3 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- A demo implementation of Succinct de Bruijn Graphs.☆25Jun 30, 2013Updated 12 years ago
- Python interface for SIMD Smith-Waterman Library☆38May 18, 2022Updated 4 years ago
- Codebase for the domain adaptation (cross-species TF binding prediction) project.☆12Aug 29, 2022Updated 3 years ago
- CHANGE-seq analysis pipeline☆11Dec 18, 2025Updated 5 months ago
- A collection of plots for long read sequencing FastQ files from devices like Oxford Nanopore's MinION and PromethION.☆12Feb 14, 2023Updated 3 years ago
- amplicon/smMIP mapping and analysis pipeline☆11Dec 8, 2022Updated 3 years ago
- ☆16Apr 17, 2026Updated last month
- CRISPR Cas9 ontarget prediction software☆32Mar 3, 2025Updated last year
- Mapping NCBI Genbank accession to GTDB accession☆14Feb 13, 2021Updated 5 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- ☆19Mar 21, 2024Updated 2 years ago
- A basic implementation of the UPGMA (Unweighted Pair Group Method with Arithmetic Mean) clustering algorithm in Python.☆13Dec 11, 2015Updated 10 years ago
- Parallel implementation of Smith–Waterman using OpenMP☆10Oct 28, 2020Updated 5 years ago
- Make phylogenetic trees and lineages from the NCBI Taxonomy database☆14Mar 19, 2023Updated 3 years ago
- kaamer - protein identification based on amino acid kmers☆11Mar 7, 2023Updated 3 years ago
- A data processing platform for ChIP-seq, RNA-seq, MNase-seq, DNase-seq, ATAC-seq and GRO-seq datasets. Please ignore information on ciphe…☆19Dec 22, 2017Updated 8 years ago
- IPython notebooks to teach Genomics and Population Genetics☆21Feb 13, 2017Updated 9 years ago