bebop/poly

A Go package for engineering organisms.

Language: Go - Size: 12.9 MB - Last synced: about 6 hours ago - Pushed: 17 days ago - Stars: 653 - Forks: 68

jonas-fuchs/varVAMP

Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.

Language: Python - Size: 2.79 MB - Last synced: 4 days ago - Pushed: 4 days ago - Stars: 19 - Forks: 8

alohadancemeow/mypost-but-github

👻 A mini social media inspired by Github, For learning how frontend+backend work together 🚀

Language: TypeScript - Size: 800 KB - Last synced: 24 days ago - Pushed: 24 days ago - Stars: 0 - Forks: 1

biologger/speciesprimer

The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacterial species in complex ecosystems.

Language: Python - Size: 5.17 MB - Last synced: 23 days ago - Pushed: 23 days ago - Stars: 34 - Forks: 18

gear-genomics/dicey

In-silico PCR, primer design and padlock design for in-situ sequencing

Language: C++ - Size: 344 KB - Last synced: about 1 month ago - Pushed: 5 months ago - Stars: 40 - Forks: 3

gear-genomics/silica

In-silico PCR amplification on complete genomes

Language: JavaScript - Size: 1.25 MB - Last synced: about 1 month ago - Pushed: 6 months ago - Stars: 9 - Forks: 0

Owaiskhan9654/Gene-Sequence-Primer-

Gene and Primer Sequence Analysis for SARS-CoV-2, EGFR(Non Small Lung Cancer Cell), Influenza DNAs ### How can I check my Oligo primers to ensure there are no significant primer design issues? - The difference between melting temperatures (Tm) of the primers should be less than 5°C. - The GC content should be between 35-80% or equivalent to the product being amplified. - The Delta G value of any self-dimers, hairpins, and heterodimers should be weaker (more positive) than -9.0 kcal/mole. Positive numbers indicate that the actual secondary structure shown will not form at all. - Avoid 3' complementarity between the two primers to prevent primer dimers. The IDT OligoAnalyzer APIs can be used to assess these different criteria for a proposed oligo. #### [Reference](https://sg.idtdna.com/pages/support/faqs/how-can-i-check-my-pcr-primers-using-the-oligoanalyzer-program-to-ensure-there-are-no-significant-primer-design-issues-)

Language: Jupyter Notebook - Size: 4.31 MB - Last synced: 5 days ago - Pushed: about 2 months ago - Stars: 7 - Forks: 0

dreryos/primerGUI

Small all to help with adding ATTs to target sequence (F primer first 20 nuclides and R primer si picked as stop -)

Language: Python - Size: 272 KB - Last synced: about 2 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

billzt/PrimerServer2

PrimerServer2: a high-throughput primer design and specificity-checking platform

Language: Python - Size: 961 KB - Last synced: 17 days ago - Pushed: over 1 year ago - Stars: 69 - Forks: 14

ipb-halle/GoldenMutagenesis

Support for rapid design of primers for amino acid exchanges and saturation mutagenesis by Golden Gate cloning.

Language: R - Size: 6.33 MB - Last synced: about 2 months ago - Pushed: about 3 years ago - Stars: 4 - Forks: 2

naturalis/changing-invaders

Scripts and config files for assembly and SNP design of genomics of Polynesian rats

Language: R - Size: 9.33 MB - Last synced: about 2 months ago - Pushed: almost 2 years ago - Stars: 0 - Forks: 0

widdowquinn/find_differential_primers

Code for design of diagnostic PCR primers, and metabarcoding markers.

Language: Python - Size: 95.8 MB - Last synced: about 1 month ago - Pushed: 6 months ago - Stars: 56 - Forks: 23

dieterich-lab/primex

Language: R - Size: 820 KB - Last synced: 2 months ago - Pushed: over 6 years ago - Stars: 1 - Forks: 0

dieterich-lab/circtools

circtools: a modular, python-based framework for circRNA-related tools that unifies several functionalities in a single, command line driven software.

Language: Python - Size: 2.46 MB - Last synced: 2 months ago - Pushed: 5 months ago - Stars: 22 - Forks: 20

qPCR4vir/ThDySec

Modeling of primers/probes hybridization on to a set of target viral sequences.

Language: C++ - Size: 22.4 MB - Last synced: about 2 months ago - Pushed: 4 months ago - Stars: 4 - Forks: 1

Mohamed-Elmanzalawi/PCR-primer-script

Streamlining dataset analysis and primer design for efficient genetic studies. Our Project is driven by robust algorithms, aims to achieve quick and accurate results. Leveraging Muscle alignment and Primer-BLAST, the project simplifies the process to enhance the precision of genetic analysis.

Language: Python - Size: 9.55 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 2 - Forks: 0

weinerlab/mtk_primer_generator

Automagically ✨ generate primers for Golden Gate cloning using the Mammalian Cloning Toolkit (MTK)

Language: Python - Size: 30.3 KB - Last synced: 25 days ago - Pushed: about 2 years ago - Stars: 3 - Forks: 6

swiing/hugo-theme-primer 📦

Makes it easy to use github primer in hugo

Language: HTML - Size: 125 KB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 1 - Forks: 0

sanjaynagi/AnoPrimer

Primer Design in Anopheles gambiae and funestus considering genetic variation

Language: Jupyter Notebook - Size: 13.7 MB - Last synced: 3 days ago - Pushed: 3 days ago - Stars: 2 - Forks: 4

michiFerri/PABLOG

An easy-to-use tool designed to help in primer design workflow, especially for non-model species analysis.

Language: Python - Size: 66.4 KB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 0 - Forks: 0

caanene1/miRNAprimer

R package for designing miRNA primers.

Language: R - Size: 40 KB - Last synced: 4 months ago - Pushed: almost 5 years ago - Stars: 1 - Forks: 2

ujenjt/miprimer

Webapp for design DNA primers for miRNA qPCR process

Language: CSS - Size: 14.6 KB - Last synced: 4 months ago - Pushed: about 7 years ago - Stars: 14 - Forks: 1

ShuXingYu94/Primer-picker

Designing and blasting to find primer with specific PCR product

Language: Python - Size: 6.13 MB - Last synced: 5 months ago - Pushed: 5 months ago - Stars: 0 - Forks: 0

gear-genomics/verdin

Variant Primer Design

Language: Python - Size: 85 KB - Last synced: about 1 month ago - Pushed: over 2 years ago - Stars: 3 - Forks: 0

Edinburgh-Genome-Foundry/Primavera

:cherry_blossom: Python library for primer-based verification of DNA assemblies: primer selection, data analyis, etc.

Language: Python - Size: 2.57 MB - Last synced: 19 days ago - Pushed: about 2 years ago - Stars: 33 - Forks: 4

GEizaguirre/PolyPrimer

Tool in Perl for finding Polymorphisms in primers for human genes.

Language: Perl - Size: 111 MB - Last synced: 7 months ago - Pushed: over 5 years ago - Stars: 1 - Forks: 1

mcgml/PrimerDesigner

Design PCR primers around chromosomal targets using Primer3. SNPs and ambiguous alignments are removed.

Language: Java - Size: 36.1 KB - Last synced: 7 months ago - Pushed: over 7 years ago - Stars: 0 - Forks: 2

AntoineHo/PriDe

PriDe: Primer Design tool

Language: Python - Size: 38.1 KB - Last synced: 7 months ago - Pushed: over 4 years ago - Stars: 1 - Forks: 2

schellt/msat-loci-identification

De novo microsatellite loci identification pipeline as used in Schröder et al. (2021)

Language: Perl - Size: 5.86 KB - Last synced: 7 months ago - Pushed: about 3 years ago - Stars: 0 - Forks: 0

rbr7/Prog_in-Biological_and_Health_Science

Solutions for day-to-day computational problems in biological and health sciences.

Language: Python - Size: 25.4 KB - Last synced: 7 months ago - Pushed: over 2 years ago - Stars: 0 - Forks: 0

rdpstaff/EcoFunPrimer

primer design pipeline

Language: Java - Size: 213 KB - Last synced: about 2 months ago - Pushed: about 4 years ago - Stars: 6 - Forks: 4

kvdomingo/primerdriver 📦

PrimerDriver - Automated design of mutagenic PCR primers

Language: Python - Size: 4.5 MB - Last synced: 19 days ago - Pushed: about 1 year ago - Stars: 8 - Forks: 0

github/mlops

Use GitHub to facilitate automation, collaboration and reproducibility in your machine learning workflows.

Language: JavaScript - Size: 2.51 MB - Last synced: 8 months ago - Pushed: over 1 year ago - Stars: 23 - Forks: 7

epigen-UCSD/snATAC_index_designer

A tool to design reliable index sets for scATAC

Language: Python - Size: 161 KB - Last synced: 10 months ago - Pushed: almost 6 years ago - Stars: 0 - Forks: 1

Kallepan/primer-designer

Primer Design Tool

Language: Python - Size: 2.96 MB - Last synced: 29 days ago - Pushed: 30 days ago - Stars: 0 - Forks: 0

DanielSchuette/cloningPrimer

Web App, CLI, and API for designing cloning primer pairs - written in Go👩🏼‍🔬👨🏼‍🔬

Language: Go - Size: 11.6 MB - Last synced: 10 months ago - Pushed: over 5 years ago - Stars: 3 - Forks: 2

VascoElbrecht/PrimerMiner

R mased batch sequence downloader, with primer development and in silico evaluation capabilities

Language: R - Size: 5.02 MB - Last synced: 7 months ago - Pushed: over 4 years ago - Stars: 30 - Forks: 11

smitbarmase/pods

🚀 Project management and communication tool for teams.

Language: TypeScript - Size: 1.81 MB - Last synced: about 1 year ago - Pushed: about 3 years ago - Stars: 8 - Forks: 2

billzt/PrimerServer 📦

Obsolete!! Begin to turn to PrimerServer2

Language: Perl - Size: 1.67 MB - Last synced: 7 months ago - Pushed: almost 5 years ago - Stars: 10 - Forks: 2

leylabmpi/CoreGenomePrimers

Design clade-specific primers targeting a pan-genome core gene

Language: Jupyter Notebook - Size: 14.4 MB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 1 - Forks: 1

underground/material-icons-search

A simple Github-like material design icon search app created with Vue.js and Primer CSS.

Language: Vue - Size: 6.98 MB - Last synced: about 1 year ago - Pushed: about 1 year ago - Stars: 0 - Forks: 0

eskutkaan-zz/biodata

a molecular solutions toolbox for molecular biologists.

Language: Python - Size: 65.4 KB - Last synced: 16 days ago - Pushed: over 3 years ago - Stars: 1 - Forks: 0

jamestiotio/systems-world-1d

SUTD 2020 10.007 Modelling the Systems World 1D Project

Language: Python - Size: 188 KB - Last synced: 15 days ago - Pushed: almost 4 years ago - Stars: 0 - Forks: 0

qPCR4vir/primer3-ori Fork of primer3-org/primer3

Primer3 is a command line tool to select primers for polymerase chain reaction (PCR).

Language: C - Size: 31.8 MB - Last synced: about 2 months ago - Pushed: over 5 years ago - Stars: 0 - Forks: 0

wuv21/haystack

command-line tool for customized primers from fasta files

Language: Python - Size: 10.7 KB - Last synced: about 1 year ago - Pushed: over 6 years ago - Stars: 0 - Forks: 0