nanoporetech / pyspoaView external linksLinks
Python bindings to spoa
☆22Dec 3, 2025Updated 2 months ago
Alternatives and similar repositories for pyspoa
Users that are interested in pyspoa are comparing it to the libraries listed below
Sorting:
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 2 years ago
- A SIMD-accelerated library to compute random minimizers☆36Jan 20, 2026Updated 3 weeks ago
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆20Nov 12, 2025Updated 3 months ago
- Fast viral consensus genome reconstruction☆25Feb 5, 2026Updated last week
- Bitpacked sequence trait and implementation☆16Jan 20, 2026Updated 3 weeks ago
- Predict prokaryotic hosts for phage (meta) genomic sequences☆11Apr 4, 2022Updated 3 years ago
- A Nextflow pipeline to play Doom☆10Dec 1, 2025Updated 2 months ago
- Mycobacterium tuberculosis complex lineage typing☆10Jun 22, 2025Updated 7 months ago
- A barcode demultiplexer for Oxford Nanopore long-read amplicon sequencing data☆10Nov 27, 2024Updated last year
- SIMD partial order alignment tool/library☆171Sep 21, 2025Updated 4 months ago
- ARTIC SARS-CoV-2 workflow and reporting☆50Apr 25, 2025Updated 9 months ago
- A small, auxiliary index to massively improve parallel fastq parsing☆30Updated this week
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 5 years ago
- ☆16Aug 8, 2025Updated 6 months ago
- Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing libra…☆15Feb 27, 2024Updated last year
- A tool to detect acquired AMR genes directly from long read sequencing data.☆20Jan 31, 2026Updated last week
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)☆59Mar 23, 2023Updated 2 years ago
- The ARTIC fieldbioinformatics pipeline☆128Jan 7, 2026Updated last month
- abPOA: an SIMD-based C library for fast partial order alignment using adaptive band☆135Oct 26, 2025Updated 3 months ago
- Fast and scalable nanopore adaptive sampling☆35Jun 6, 2023Updated 2 years ago
- VarSkip multiplex PCR designs for SARS-CoV-2 sequencing☆14Jun 14, 2022Updated 3 years ago
- A command line program for large scale buffering between piped programs☆16Nov 19, 2021Updated 4 years ago
- Ultra-rapid detection of viral variants directly from sequencing data☆34Feb 6, 2026Updated last week
- Genomic Assemblies Merger for NGS☆26Nov 10, 2023Updated 2 years ago
- Ancestral Sequence Reconstruction in Python☆14May 9, 2019Updated 6 years ago
- Colinear block visualisation tool☆31Jan 17, 2024Updated 2 years ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆37Jan 22, 2026Updated 3 weeks ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 2 years ago
- Hardware Accelerated Read Until☆17Sep 30, 2025Updated 4 months ago
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- ☆18Dec 26, 2025Updated last month
- Basecalling configuration prediction through FASTQ files☆32Nov 24, 2025Updated 2 months ago
- Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.☆16Jan 23, 2026Updated 3 weeks ago
- A database for signatures of public genomic sources☆18Jan 1, 2026Updated last month
- µbinfie blog☆18Jul 21, 2025Updated 6 months ago
- rapidly rid reads of horrid humans☆15Dec 2, 2021Updated 4 years ago
- A tool for de novo clustering of long transcriptomic reads☆15Oct 2, 2022Updated 3 years ago
- Fast implementation of the Neighbour-Joining method for phylogenetic inference☆18Sep 10, 2024Updated last year
- Nextflow workshop 2018 -- Training pages -> https://nextflow-io.github.io/nf-hack18/☆19Mar 24, 2019Updated 6 years ago