wwood / singlemLinks
Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes
☆144Updated 2 weeks ago
Alternatives and similar repositories for singlem
Users that are interested in singlem are comparing it to the libraries listed below
Sorting:
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆130Updated last month
- A tool for generating consensus long-read assemblies for bacterial genomes☆147Updated this week
- A toolbox for pangenome analysis and threshold evaluation.☆97Updated 2 years ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆121Updated last year
- Supporting code for uncultivated gut virus manuscript☆72Updated last year
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆201Updated 11 months ago
- A toolbox for comparative genomics.☆104Updated 4 years ago
- Reorients assembled microbial sequences☆121Updated 3 months ago
- Assemble bacterial isolate genomes from Nanopore reads☆127Updated 5 months ago
- DDBJ Fast Annotation and Submission Tool☆79Updated last month
- A pipeline for running AMRfinderPlus and collating results into functional classes☆79Updated 10 months ago
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆144Updated last month
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆95Updated 2 months ago
- Bioinformatics program inStrain☆173Updated last month
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆232Updated 3 months ago
- WtP: Phage identification via nextflow and docker or singularity☆105Updated last month
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆116Updated 3 months ago
- Metagenomic classification of long-read sequencing data☆85Updated last month
- a short-read polishing tool for long-read assemblies☆170Updated last year
- SKESA assembler☆119Updated 8 months ago
- DAS Tool☆150Updated last year
- Create a tree using Mash distances☆167Updated last year
- ☆125Updated last week
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆86Updated last year
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆152Updated 2 months ago
- OPERA-MS - Hybrid Metagenomic Assembler☆95Updated 11 months ago
- Foreign Contamination Screening caller scripts and documentation☆130Updated 3 months ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆71Updated last year
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆114Updated last year
- A tool for drawing ANI clustermap between all-vs-all microbial genomes☆84Updated last month