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  • University of Pennsylvania
  • Philadelphia, PA

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App to bypass censorship on Android

Kotlin 3,176 141 Updated Sep 5, 2024

GoodbyeDPI — Deep Packet Inspection circumvention utility (for Windows)

C 25,825 1,910 Updated Nov 6, 2024

An easy-to-use, flexible website template for labs.

HTML 373 316 Updated Dec 16, 2024

Microbial agile accurate SNP Typer

Python 29 2 Updated Dec 27, 2023

Anses - tools for download Salmonella genomes and apply quality filters

Python 4 1 Updated Mar 23, 2022

⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies

Python 23 3 Updated Oct 27, 2023

An updated pipeline for pangenome investigation

Python 272 33 Updated Oct 7, 2024

PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.

R 58 6 Updated Oct 10, 2023

Nice Automatic Research of Alleles

Python 4 1 Updated Oct 8, 2020

Gene cluster comparison figure generator

Python 545 71 Updated Nov 25, 2024

Here you can find all tutorials and materials for the GGBC python for biologists course

HTML 5 3 Updated May 29, 2020

Accelerated BLAST compatible local sequence aligner.

C++ 1,081 180 Updated Nov 28, 2024

MLVA In Silico Typing Resource for Salmonella Strains

Python 3 1 Updated Sep 16, 2024

Powerful and extensible proxy server with anti-censorship functionality

Java 1,267 83 Updated Sep 6, 2023

Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on homology and SNP models.

Python 341 78 Updated Dec 18, 2024

an interactive viewer for populations of bacterial genomes linked by a phylogeny

JavaScript 118 30 Updated Feb 26, 2024

An analysis and visualization platform for 'omics data

Python 447 145 Updated Dec 23, 2024

Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can be both draft assemblies and finished genomes, and output inc…

C++ 132 25 Updated Dec 16, 2024
52 11 Updated May 11, 2021

snipit: summarise snps relative to your reference sequence

Python 150 28 Updated Nov 13, 2024

Estimate heterozygosity or mixture level of a bacterial WGS sample

4 Updated Mar 23, 2021

Pan-genome wide association studies

Python 164 35 Updated May 29, 2024

List of computational resources for analyzing microbial sequencing data.

66 29 Updated Oct 18, 2023
Python 1 Updated Apr 19, 2022

Various scripts for efficient processing of 10k Salmonella genomes

Shell 13 3 Updated Sep 16, 2021

Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes

Python 351 73 Updated Sep 3, 2024

Code and slides for RStudio webinars

HTML 1 Updated Nov 16, 2018

Multi-level Genome Typing

Python 2 Updated Aug 12, 2019

Accessory Based Source Attribution

R 2 Updated Jan 17, 2020

A tool for the identification of coincident (associating and dissociating) genes in pangenomes.

C++ 97 10 Updated Oct 20, 2023
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