GEAR

All

24 repositories

saint
Public
[WIP] saint (similarity hunter): Rapid DNA similarity search against entire genomes.
JavaScript
•1•4•0•0•Updated Jan 18, 2026Jan 18, 2026
ancient
Public
Ancestry inference with convolutional neural networks
machine-learning tensorflow sequencing ancestry convolutional-neural-networks ancestry-research snp-genotyping gear-genomics
Vue
•
GNU General Public License v3.0
•2•9•0•0•Updated Jan 18, 2026Jan 18, 2026
apps-page
Public
GEAR home page
website genomics computational-biology primer-design sanger-chromatograms gear-genomics sanger-sequencing
Vue
•0•2•0•0•Updated Jan 18, 2026Jan 18, 2026
dicey
Public
In-silico PCR, primer design and padlock design for in-situ sequencing
primer padlock pcr amplicon primer-design amplicon-sequencing gear-genomics in-silico sanger-sequencing in-situ-sequencing
C++
•
GNU General Public License v3.0
•3•53•3•0•Updated Jan 12, 2026Jan 12, 2026
padlock
Public
Design padlock probes for in-situ sequencing
genomics probes probe-design in-situ-sequencing
HTML
•
GNU General Public License v3.0
•0•1•0•0•Updated Jan 12, 2026Jan 12, 2026
bistro
Public
bistro: barcode distribution
genomics sequencing dna dna-barcode gear-genomics
HTML
•
GNU General Public License v3.0
•2•2•0•0•Updated Dec 29, 2025Dec 29, 2025
sabre
Public
Sequence Alignment Browser
visualization research genomics dna alignment sequence gear-genomics
JavaScript
•
GNU General Public License v3.0
•1•7•0•0•Updated Dec 28, 2025Dec 28, 2025
maze
Public
maze: match visualizer | visually align dna sequences using exact matches
JavaScript
•
MIT License
•1•0•0•0•Updated Dec 28, 2025Dec 28, 2025
bgen
Public
Barcode Generator
genomics dna high-throughput-sequencing dna-sequences dna-sequencing dna-barcode gear-genomics
JavaScript
•
GNU General Public License v3.0
•2•3•0•0•Updated Dec 27, 2025Dec 27, 2025
halo
Public
Halo: Haplotype processor
haplotypes alignment bam single-cell
C++
•
GNU General Public License v3.0
•1•3•0•0•Updated Dec 27, 2025Dec 27, 2025
wily-dna-editor
Public
The Wily-DNA-Editor is a browser tool for plasmid assembly, reverse complements DNA, translates to protein code and calculates restriction digests maps.
gear-genomics
JavaScript
•
GNU General Public License v3.0
•1•15•0•0•Updated Dec 26, 2025Dec 26, 2025
sage
Public
Sanger Trace Alignment
trace alignment pcr sanger-chromatograms chromatogram gear-genomics sanger-trace-alignment
JavaScript
•
GNU General Public License v3.0
•0•4•0•0•Updated Dec 19, 2025Dec 19, 2025
teal
Public
Sanger Trace Viewer
trace pcr sanger-chromatograms sanger gear-genomics
JavaScript
•
GNU General Public License v3.0
•2•10•0•0•Updated Dec 18, 2025Dec 18, 2025
tracy
Public
Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files
sequencing alignment crispr-analysis variant-calling pcr tracy crispr-cas9 sanger-chromatograms indel-discovery chromatogram
C++
•
BSD 3-Clause "New" or "Revised" License
•22•119•7•2•Updated Dec 2, 2025Dec 2, 2025
gearlog
Public
Python
•0•0•0•0•Updated Nov 24, 2025Nov 24, 2025
indigo
Public
Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products
sequencing variants alignment crispr-analysis indigo variant-calling pcr indels crispr-cas9 sanger-chromatograms
JavaScript
•
GNU General Public License v3.0
•9•36•0•0•Updated Nov 18, 2025Nov 18, 2025
pearl
Public
Patching references via trace assemblies
pcr sanger-chromatograms gear-genomics sanger-trace-alignment sanger-sequencing
JavaScript
•
GNU General Public License v3.0
•2•4•5•0•Updated Nov 18, 2025Nov 18, 2025
silica
Public
In-silico PCR amplification on complete genomes
primer pcr amplicon primer-design gear-genomics in-silico sanger-sequencing
JavaScript
•
GNU General Public License v3.0
•1•11•0•0•Updated Nov 18, 2025Nov 18, 2025
wallyapp
Public
Frontend web application for wally to visualize aligned sequencing reads
visualization genomics alignment genomics-visualization sequencing-data
HTML
•
GNU General Public License v3.0
•0•1•0•0•Updated Aug 20, 2025Aug 20, 2025
libs
Public
The libraries and fonts commonly used in the gear applications
CSS
•0•0•0•0•Updated Aug 7, 2023Aug 7, 2023
salt
Public
Sequence Alignment Tool
dna alignment dna-sequences pairwise-alignment gear-genomics
JavaScript
•
Other
•16•0•0•0•Updated Aug 3, 2023Aug 3, 2023
verdin
Public
Variant Primer Design
genome variant-calling pcr primer-design gear-genomics
Python
•
GNU General Public License v3.0
•0•3•0•0•Updated Oct 11, 2021Oct 11, 2021
primer3plus
Public
Primer3Plus is an advanced web interface for primer3.
Perl
•
GNU General Public License v3.0
•12•0•0•0•Updated Oct 11, 2021Oct 11, 2021
rdml-tools
Public
A collection of web applications to visualize, edit and validate RDML files.
JavaScript
•
GNU General Public License v3.0
•3•0•0•0•Updated Oct 11, 2021Oct 11, 2021