Systematic ProtEin AnnotatoR
☆19Sep 20, 2025Updated 5 months ago
Alternatives and similar repositories for SPEAR
Users that are interested in SPEAR are comparing it to the libraries listed below
Sorting:
- Read contamination removal☆25Jan 24, 2024Updated 2 years ago
- Searching DNA/RNA sequence databases with PCR and/or probe queries☆22Feb 23, 2026Updated last week
- ☆12Feb 15, 2023Updated 3 years ago
- ☆74Jan 23, 2024Updated 2 years ago
- 🦠🧬 Unraveling Viral Genomes from Metagenomes☆10Oct 3, 2025Updated 4 months ago
- snipit: summarise snps relative to your reference sequence☆167Jan 13, 2026Updated last month
- app to collapse Pango lineages for reporting☆13Dec 9, 2025Updated 2 months ago
- C++ tools for NCBI taxonomy tasks☆12Jun 26, 2025Updated 8 months ago
- A phylogenetic profile analysis tool☆38Feb 23, 2026Updated last week
- Course materials for an introduction to SARS-CoV-2 sequencing data analysis☆14Aug 15, 2024Updated last year
- Rapid analysis and visualization of coronavirus genome variation☆48Updated this week
- An SRA tool that takes as input local fastq file from a clinical infection sample, identifies and removes any significant human read, and…☆52Jul 24, 2025Updated 7 months ago
- A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…☆91Nov 8, 2023Updated 2 years ago
- Cluster Investigation & Virus Epidemiology Tool☆50Jun 17, 2025Updated 8 months ago
- Pipeline to automatically analyse SARS-CoV-2 Whole genome sequencing Illumina data obtained using EasySeq SARS-CoV-2/COVID-19 Whole Geno…☆15Jul 26, 2022Updated 3 years ago
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- Report salient qPCR primer/probe or immune epitope mismatches info against a set of pathogen isolate genomes☆16Mar 11, 2025Updated 11 months ago
- Prediction of B-cell epitopes from amino acid sequences using deep neural networks.☆16Aug 3, 2021Updated 4 years ago
- ☆16May 22, 2023Updated 2 years ago
- rapidly rid reads of horrid humans☆15Dec 2, 2021Updated 4 years ago
- Biological Graphic tool in Python☆34May 14, 2020Updated 5 years ago
- Fast implementation of the Neighbour-Joining method for phylogenetic inference☆18Sep 10, 2024Updated last year
- CFSAN Shigella Typing Pipeline☆15Jul 6, 2023Updated 2 years ago
- Reproducible workflow for SARS-CoV-2 recombinant sequence detection.☆18May 15, 2023Updated 2 years ago
- ☆30Sep 21, 2023Updated 2 years ago
- InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..☆31Dec 27, 2023Updated 2 years ago
- Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input…☆36May 1, 2022Updated 3 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆33Jul 2, 2024Updated last year
- Programmatically interact with the GISAID database.☆80Aug 5, 2025Updated 6 months ago
- Pipeline for processing FASTQ data from an Illumina MiSeq to genotype human RNA viruses like HIV and hepatitis C☆19Updated this week
- A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment☆20Nov 12, 2025Updated 3 months ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆37Jan 22, 2026Updated last month
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)☆60Mar 23, 2023Updated 2 years ago
- ☆20Jun 10, 2024Updated last year
- The MLST pipeline developed by the PathOGiST research group☆36Nov 29, 2023Updated 2 years ago
- Influenza genome analysis Nextflow workflow☆24Jan 26, 2026Updated last month
- Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation☆114Updated this week
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Sep 23, 2025Updated 5 months ago
- A fast, AVX2 and ARM Neon accelerated FM index library☆36Dec 9, 2024Updated last year