SamStudio8 / reticulatusLinks
A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads
☆68Updated 3 years ago
Alternatives and similar repositories for reticulatus
Users that are interested in reticulatus are comparing it to the libraries listed below
Sorting:
- 🔗Genome assembly scaffolder using minimizer graphs☆84Updated last year
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆58Updated 4 years ago
- ☆31Updated last year
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- A scalable bacterial genome assembly, annotation and analysis pipeline☆75Updated last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- tools for assessing the accuracy of genome assemblies☆34Updated last year
- A tool for Racon polishing of miniasm assemblies☆78Updated last month
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- Scripts and programs for the Holt Lab's MinION desktop☆32Updated 4 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- Microbiome classification pipeline☆65Updated 5 months ago
- A resistome profiler for Graphing Resistance Out Of meTagenomes☆65Updated 5 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- a collection of scripts for organising bacterial genomes by species☆81Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- A short analysis of Oxford Nanopore consensus accuracy for bacterial genome assemblies☆60Updated 6 years ago
- Hybrid error correction of long reads using colored de Bruijn graphs☆106Updated last month
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆55Updated 4 months ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆76Updated 9 years ago
- Visualize whole genome alignments as linear maps☆73Updated 2 months ago
- A fast tool for hybrid genome assembly of long and short reads☆78Updated 5 years ago
- hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.☆69Updated this week
- ✏️ Genome assembly polishing & SNV detection☆70Updated 3 weeks ago
- CRyPTIC data processing pipelines☆34Updated last year
- nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…☆70Updated 3 years ago
- de novo virus assembler of Illumina paired reads☆57Updated 4 years ago
- A tool for removing redundant genomes from a set of assemblies☆77Updated last month
- PacBio hybrid error correction through iterative short read consensus☆60Updated 6 years ago
- ☆37Updated 3 years ago