SeqAn

All

51 repositories

needle
Public
A fast and space-efficient pre-filter for estimating the quantification of very large collections of nucleotide sequences
bloom-filters minimizer ngs-data
bloom-filters minimizer ngs-data ibf seqan3
C++
•
Other
•9•14•7•3•Updated Mar 23, 2026Mar 23, 2026
hibf_benchmarks
Public
WIP HIBF benchmarks
Python
•
BSD 3-Clause "New" or "Revised" License
•2•0•1•4•Updated Mar 23, 2026Mar 23, 2026
hibf
Public
HIBF and IBF
C++
•
Other
•3•4•6•10•Updated Mar 23, 2026Mar 23, 2026
seqan3
Public
The modern C++ library for sequence analysis. Contains version 3 of the library and API docs.
bioinformatics modern fasta
bioinformatics modern fasta blast seqan fastq samtools sequence-alignment fm-index sequence-analysis
C++
•
Other
•87•448•30•2•Updated Mar 21, 2026Mar 21, 2026
raptor
Public
A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.
filter bloom-filter threshold
filter bloom-filter threshold binning k-mer minimizer set-membership
C++
•
Other
•17•53•11•5•Updated Mar 21, 2026Mar 21, 2026
sharg-parser
Public
The modern argument parser for c++ tools
cpp modern-cpp argument-parsing
cpp modern-cpp argument-parsing command-line-parser cpp20
C++
•
Other
•8•11•12•4•Updated Mar 21, 2026Mar 21, 2026
FPGAlign
Public
C++
•
Other
•1•0•0•1•Updated Mar 21, 2026Mar 21, 2026
app-template
Public template
This template comes pre-configured with various SeqAn libraries and a basic Continuous Integration setup. It is designed to provide a robust starting point for …
CMake
•
Other
•9•6•20•0•Updated Mar 19, 2026Mar 19, 2026
actions
Public
Shell
•
Creative Commons Attribution 4.0 International
•3•0•0•0•Updated Mar 19, 2026Mar 19, 2026
dream-stellar
Public
Fast and exact local alignments
C++
•
BSD 3-Clause "New" or "Revised" License
•3•3•5•6•Updated Mar 19, 2026Mar 19, 2026
chopper
Public
A tool for partitioning a set of sequences into similar batches.
C++
•
BSD 3-Clause "New" or "Revised" License
•9•9•6•3•Updated Mar 19, 2026Mar 19, 2026
seqan
Public
SeqAn's official repository.
high-performance cpp14 indexing
high-performance cpp14 indexing simd alignment bwt fasta blast fastq-format bioinfomatics
C++
•
Other
•173•500•104•4•Updated Mar 18, 2026Mar 18, 2026
sahara
Public
Approximate Pattern Matching with Search Schemes
C++
•1•2•0•2•Updated Mar 16, 2026Mar 16, 2026
www.seqan.de
Public
SCSS
•
MIT License
•8•0•2•1•Updated Mar 13, 2026Mar 13, 2026
seqan-std
Public
Implementation of several C++23 views
C++
•
Other
•2•0•0•0•Updated Mar 2, 2026Mar 2, 2026
ScavengerHunt
Public
Unix Scavenger Hunt
Shell
•4•0•0•0•Updated Mar 2, 2026Mar 2, 2026
pfBitvectors
Public
paired-blocks and flattened bitvectors and strings with rank support implementations.
C++
•0•2•0•1•Updated Dec 1, 2025Dec 1, 2025
ibf-fpga
Public
Mirror of https://git.zib.de/hpc-research/Projects/seqanatfpga/min-ibf-fpga-oneapi
C++
•1•2•0•0•Updated Nov 6, 2025Nov 6, 2025
stellar3
Public
the SwifT Exact LocaL AligneR
hacktoberfest
hacktoberfest
C++
•
Other
•3•0•0•3•Updated Sep 30, 2025Sep 30, 2025
lambda
Public
LAMBDA – the Local Aligner for Massive Biological DatA
bioinformatics high-performance metagenomics
bioinformatics high-performance metagenomics alignment protein-sequences ncbi-taxonomy blast blast-searches seqan
C++
•
Other
•20•83•2•1•Updated Aug 26, 2024Aug 26, 2024
cmake-scripts
Public
CMake
•1•0•0•0•Updated Mar 13, 2024Mar 13, 2024
lemon
Public
Clone of the latest release of the lemon library (only the headers)
C++
•
Other
•2•6•0•0•Updated Sep 8, 2023Sep 8, 2023
minions
Public
Comparison between different methods to simplify sequence data
k-mer minimizer set-membership
k-mer minimizer set-membership
C++
•
BSD 3-Clause "New" or "Revised" License
•2•2•8•0•Updated Aug 24, 2023Aug 24, 2023
mason
Public
Tools for Biological Sequence Simulation
HTML
•
Other
•4•8•0•2•Updated May 17, 2023May 17, 2023
flexbar
Public
flexible barcode and adapter removal
C++
•
BSD 3-Clause "New" or "Revised" License
•27•80•21•1•Updated Feb 10, 2023Feb 10, 2023
library-template
Public template
WIP
CMake
•
Other
•1•1•0•0•Updated Feb 8, 2023Feb 8, 2023
io-playground
Public
WIP
C++
•
BSD 3-Clause "New" or "Revised" License
•0•0•0•0•Updated Jan 20, 2023Jan 20, 2023
iGenVar
Public
The official repository for the iGenVar project.
C++
•
BSD 3-Clause "New" or "Revised" License
•8•9•33•4•Updated Nov 23, 2022Nov 23, 2022
seqan3-infrastructure
Public
Infrastructure for seqan3 including nightly builds, continues integration, continues deployment, coverage tests, static code analysis and containerisation.
CMake
•2•1•0•0•Updated Oct 9, 2022Oct 9, 2022
mars
Public
Motif-based aligned RNA searcher
motif rna-structure descriptors
motif rna-structure descriptors
C++
•
Other
•2•0•0•0•Updated Aug 11, 2022Aug 11, 2022