Pipeline to design taxon-specific primes in defined bacterial communities.
☆26Jan 28, 2025Updated last year
Alternatives and similar repositories for PUPpy
Users that are interested in PUPpy are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacteria…☆50Apr 24, 2024Updated 2 years ago
- ☆25Aug 1, 2025Updated last year
- ☆18Jul 27, 2023Updated 3 years ago
- ☆21Dec 21, 2022Updated 3 years ago
- ☆12Mar 11, 2025Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- MAGinator - Accurate SNV calling and profiling of MAGs☆28Mar 23, 2026Updated 6 months ago
- Reaction Analysis through Imaging of Chemical Units☆17Dec 5, 2025Updated 10 months ago
- Primer Seek in RNA-Seq. Designs RT-PCR primers that validate alternative splicing events from RNA-Seq data.☆13Nov 27, 2016Updated 9 years ago
- ☆11Mar 5, 2025Updated last year
- Visualize microbial evolution at the SNP level!☆18Aug 12, 2025Updated last year
- ☆51Jun 11, 2025Updated last year
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Feb 25, 2023Updated 3 years ago
- Counterfactual Inference by Machine Learning and Attribution Models☆15Aug 24, 2023Updated 3 years ago
- Whole genome focused array SNP typer☆14Feb 2, 2026Updated 8 months ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- ☆12Sep 4, 2025Updated last year
- Accurate and robust inference of microbial growth dynamics from metagenomic sequencing☆21May 11, 2022Updated 4 years ago
- Bifrost graph gene caller.☆102Aug 31, 2026Updated last month
- Explaining the genetic causality for complex diseases by deep association kernel learning☆15May 7, 2021Updated 5 years ago
- ☆66Apr 14, 2026Updated 5 months ago
- D3 based visualisation for comparative genomics☆15Oct 6, 2016Updated 10 years ago
- scripts for estimating bacteria replication rates based on population genome copy number variation☆76Dec 28, 2019Updated 6 years ago
- ttt☆10Apr 12, 2026Updated 6 months ago
- An R function to compute Concordance Factors from SNP datasets☆16Dec 4, 2025Updated 10 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- This repository provides users with a framework to store, search and visualize biological data.☆27Sep 23, 2026Updated 2 weeks ago
- TransAnnot - a fast transcriptome annotation pipeline☆20Jan 22, 2025Updated last year
- Interactive, web tool for exploring pan-genome of bacterial strains☆50Jan 14, 2026Updated 8 months ago
- Searching large collections of sequencing data with genome-scale queries☆21Sep 24, 2026Updated 2 weeks ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆124Aug 24, 2023Updated 3 years ago
- Calculate the dn/ds (also pn and ps) value of cds☆14Jul 11, 2020Updated 6 years ago
- PGPg_finder is a command-line tool that offers different workflows for genome and metagenome annotation of Plant-Growth Promotion Genes. …☆32Jan 20, 2026Updated 8 months ago
- software to identify primers that can distinguish genomes☆20Aug 31, 2026Updated last month
- A tool for the identification of coincident (associating and dissociating) genes in pangenomes.☆112Oct 20, 2023Updated 2 years ago
- Open source password manager - Proton Pass • AdSecurely store, share, and autofill your credentials with Proton Pass, the end-to-end encrypted password manager trusted by millions.
- Strain-level Metagenomic Estimation of Growth rate (SMEG) measures growth rates of microbial strains from complex metagenomic dataset☆21May 22, 2020Updated 6 years ago
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆23Aug 17, 2026Updated last month
- Bin Chicken - recovery of low abundance and taxonomically targeted metagenome assembled genomes (MAGs) through strategic coassembly☆78Updated this week
- A comprehensive prokaryotic genome annotation pipeline☆92Sep 4, 2026Updated last month
- AMPDeep: Hemolytic Activity Prediction of Antimicrobial Peptides using Transfer Learning☆12Aug 15, 2022Updated 4 years ago
- Selective and Recursive local Assembler☆15Jan 31, 2022Updated 4 years ago
- More scalable dereplication for metagenome assembled genomes☆89Oct 1, 2026Updated last week