chanzuckerberg / czid-webLinks
Infectious Disease Sequencing Platform
☆90Updated last week
Alternatives and similar repositories for czid-web
Users that are interested in czid-web are comparing it to the libraries listed below
Sorting:
- SEER, reimplemented in python 🐍🔮☆128Updated 8 months ago
- Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation☆114Updated 2 weeks ago
- Pairwise SNP distance matrix from a FASTA sequence alignment☆151Updated 3 weeks ago
- The Biological Observation Matrix (BIOM) Format Project☆97Updated last month
- viral-ngs: complete pipelines☆72Updated this week
- de novo virus assembler of Illumina paired reads☆58Updated 4 years ago
- ONT assembly and Illumina polishing pipeline☆88Updated 5 years ago
- Catalog of genomic indexes freely available from public clouds☆66Updated this week
- Antibiotic resistance prediction in minutes☆113Updated last year
- Profiling tool for Mycobacterium tuberculosis to detect ressistance and strain type from WGS data☆131Updated last month
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)☆58Updated 2 years ago
- 🌈Scaffold genome sequence assemblies using linked or long read sequencing data☆95Updated last year
- An integrated pipeline for estimating strain-level genomic variation from metagenomic data☆132Updated 2 years ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆124Updated 2 years ago
- Antimicrobial Resistance Identification By Assembly☆183Updated 2 years ago
- ☆108Updated last month
- Identification of differential RNA modifications from nanopore direct RNA sequencing☆162Updated last year
- A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads☆67Updated 4 years ago
- A scalable bacterial genome assembly, annotation and analysis pipeline☆74Updated 2 years ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆129Updated last year
- Create statistic summary of an Oxford Nanopore read dataset☆131Updated 3 years ago
- Python programs for processing GFF3 files☆102Updated last month
- A toolbox for pangenome analysis and threshold evaluation.☆100Updated 3 years ago
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Updated 2 years ago
- qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.☆80Updated 5 years ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health con…☆59Updated this week
- Interactive visualization of assembly graphs☆83Updated 3 years ago
- ☆50Updated 3 years ago
- YAMP: Yet Another Metagenomic Pipeline☆62Updated 2 years ago
- Population-scale genotyping using pangenome graphs☆195Updated last year