GEAR

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25 repositories

tracy
Public
Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files
sequencing crispr-analysis variant-calling pcr crispr-cas9 sanger-chromatograms indel-discovery sanger-trace-alignment sanger-sequencing pcr-products
C++
•
BSD 3-Clause "New" or "Revised" License
•21•99•9•1•Updated Oct 31, 2024Oct 31, 2024
pearl
Public
Patching references via trace assemblies
JavaScript
•
GNU General Public License v3.0
•2•2•5•1•Updated Oct 31, 2024Oct 31, 2024
halo
Public
haplotype processor
C++
•
GNU General Public License v3.0
•1•3•0•0•Updated Oct 31, 2024Oct 31, 2024
indigo
Public
Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products
sequencing variants alignment crispr-analysis variant-calling pcr indels crispr-cas9 sanger-chromatograms gear-genomics
JavaScript
•
GNU General Public License v3.0
•7•31•1•0•Updated Oct 31, 2024Oct 31, 2024
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 Oct 31, 2024Oct 31, 2024
saint
Public
[WIP] saint (similarity hunter): Rapid DNA similarity search against entire genomes.
JavaScript
•1•4•0•0•Updated Oct 31, 2024Oct 31, 2024
teal
Public
Sanger Trace Viewer
trace pcr sanger-chromatograms sanger gear-genomics
JavaScript
•
GNU General Public License v3.0
•2•7•1•0•Updated Oct 31, 2024Oct 31, 2024
gearlog
Public
Python
•0•0•0•0•Updated Oct 31, 2024Oct 31, 2024
sabre
Public
Sequence Alignment Browser
visualization research genomics dna alignment sequence gear-genomics
JavaScript
•1•7•0•1•Updated Oct 31, 2024Oct 31, 2024
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
•0•9•0•1•Updated Oct 31, 2024Oct 31, 2024
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 Oct 28, 2024Oct 28, 2024
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
•4•49•3•0•Updated Oct 23, 2024Oct 23, 2024
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 Sep 26, 2024Sep 26, 2024
apps-page
Public
GEAR home page
Vue
•0•2•0•0•Updated Sep 24, 2024Sep 24, 2024
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 Jul 23, 2024Jul 23, 2024
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 Jun 10, 2024Jun 10, 2024
libs
Public
The libraries and fonts commonly used in the gear applications
CSS
•0•0•0•0•Updated Aug 7, 2023Aug 7, 2023
bistro
Public
bistro: barcode distribution
genomics sequencing dna dna-barcode gear-genomics
HTML
•2•2•0•0•Updated Aug 5, 2023Aug 5, 2023
maze
Public
maze: match visualizer | visually align dna sequences using exact matches
JavaScript
•
MIT License
•1•0•0•0•Updated Aug 3, 2023Aug 3, 2023
salt
Public
Sequence Alignment Tool
dna alignment dna-sequences pairwise-alignment gear-genomics
JavaScript
•
Other
•13•0•0•0•Updated Aug 3, 2023Aug 3, 2023
terms-of-use
Public
0•0•0•0•Updated Nov 16, 2022Nov 16, 2022
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•12•0•0•Updated Jan 6, 2022Jan 6, 2022
verdin
Public
Variant Primer Design
variant-calling pcr primer-design gear-genomics genome
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
•11•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
•2•0•0•0•Updated Oct 11, 2021Oct 11, 2021