Stitch together Nanopore tiled amplicon data without polishing a reference
☆17Jan 29, 2024Updated 2 years ago
Alternatives and similar repositories for Lilo
Users that are interested in Lilo are comparing it to the libraries listed below
Sorting:
- MetaPORE – Chiu Laboratory, University of California, San Francisco☆12Nov 4, 2015Updated 10 years ago
- Nanopore read de-multiplexer☆13Mar 25, 2020Updated 5 years ago
- A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.☆19Updated this week
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- Taxa Insertion by Parsimony☆15Jan 22, 2025Updated last year
- ☆16Mar 11, 2024Updated last year
- ☆21Jan 23, 2026Updated last month
- Assembly of Nanopore Sequencing☆17Jan 8, 2026Updated last month
- Sequence-independent identification and removal of adapters/systemic contamination in shotgun sequencing data. https://doi.org/10.1093/bi…☆18Apr 4, 2023Updated 2 years ago
- VIGOR4☆21Aug 15, 2025Updated 6 months ago
- Strain Prediction and Analysis with Representative SEquence☆19Dec 8, 2024Updated last year
- A Nextflow full-length 16S profiling pipeline for ONT reads☆25Nov 16, 2023Updated 2 years ago
- Full-length de novo viral haplotype reconstruction from noisy long reads☆21Nov 6, 2023Updated 2 years ago
- Code for de novo discovery of viral families in virome data☆16Jun 20, 2024Updated last year
- ☆11Mar 10, 2024Updated last year
- FluMut is a command-line tool to find markers of interest in H5N1 avian influenza viruses.☆13Feb 3, 2026Updated last month
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆12Jun 30, 2023Updated 2 years ago
- ☆11Apr 5, 2021Updated 4 years ago
- A microbial genomic analysis pipeline used by the Djordjevic Lab☆13Feb 9, 2025Updated last year
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- Pipeline for Illumina shotgun sequencing of 16S rRNA amplicon sequences☆14Sep 2, 2016Updated 9 years ago
- Bacterial typing pipeline for clinical NGS data. Written in NextFlow, Python & Bash.☆13Updated this week
- Collection of R scripts for SARS-CoV-2 (variant) analyses☆12Mar 2, 2023Updated 3 years ago
- frame-shift correction for long-read (meta)genomics☆33Dec 11, 2023Updated 2 years ago
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆49Apr 25, 2024Updated last year
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆13Jun 12, 2024Updated last year
- Parallelised and automated construction of metagenomic classifier databases of different tools☆20Feb 20, 2026Updated last week
- Course materials for an introduction to SARS-CoV-2 sequencing data analysis☆14Aug 15, 2024Updated last year
- INC-Seq: Accurate single molecule reads using nanopore sequencing☆16Sep 11, 2020Updated 5 years ago
- Resolving Species Level Classification Using Emu☆14Jun 14, 2024Updated last year
- Correcting errors in noisy long reads using variation graphs☆50Nov 17, 2022Updated 3 years ago
- Cluster Investigation & Virus Epidemiology Tool☆50Jun 17, 2025Updated 8 months ago
- A containerized bioinformatics pipeline for viral metagenomic data analysis☆37Aug 4, 2024Updated last year
- ☆15Jun 26, 2025Updated 8 months ago
- Real-time species-typing visualisation for nanopore data.☆13Apr 11, 2023Updated 2 years ago
- Reference-free clustering and consensus forming of long-read amplicon sequencing☆66Apr 21, 2025Updated 10 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆33Jul 2, 2024Updated last year
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆37Jan 22, 2026Updated last month
- ☆14Jun 30, 2021Updated 4 years ago