metagenlab / assembly_finderLinks
snakemake-powered cli to download genomes using NCBI datasets
☆14Updated 2 months ago
Alternatives and similar repositories for assembly_finder
Users that are interested in assembly_finder are comparing it to the libraries listed below
Sorting:
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆22Updated 2 years ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆22Updated 2 months ago
- ☆10Updated 4 months ago
- ☆24Updated 9 months ago
- A taxonomic classifier of plasmids☆28Updated 4 years ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 3 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated last week
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 6 months ago
- software to identify primers that can distinguish genomes☆20Updated 9 months ago
- Genome size estimation from long read overlaps☆62Updated last month
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆27Updated 2 weeks ago
- ☆23Updated last week
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Interpretative standards for AMR genotypes☆25Updated last week
- Intra-species bacterial contamination detection☆25Updated 8 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆55Updated 6 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- Calculate assocations between genes and traits☆28Updated 7 months ago
- Bacterial GWAS analysis☆45Updated 3 months ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 3 months ago
- Finding regions of similarity between plasmids☆16Updated 2 years ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- An community curated awesome list of tools, software, databases and other resources for working/analysing RNA Viruses☆18Updated 2 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated last year
- Discover and annotate the virome☆53Updated 2 weeks ago
- TAXnomic Profile Aggregation and STAndardisation☆41Updated 2 months ago
- Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-…☆24Updated 3 weeks ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- ccfind - circular complete genome finder with clues of terminal redundancy☆15Updated 5 years ago