rpetit3 / assembly-scanLinks
Generate basic stats for an assembly.
☆13Updated 2 years ago
Alternatives and similar repositories for assembly-scan
Users that are interested in assembly-scan are comparing it to the libraries listed below
Sorting:
- Genome size estimation from long read overlaps☆59Updated last week
- Finding regions of similarity between plasmids☆16Updated 2 years ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆27Updated 2 weeks ago
- software to identify primers that can distinguish genomes☆21Updated 7 months ago
- MetagenOmic read Re-Assigner and abundance quantifier☆19Updated 7 months ago
- Remove human reads from a sequencing run☆40Updated last month
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆26Updated last year
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆27Updated last month
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆12Updated last year
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆23Updated 2 years ago
- frame-shift correction for long-read (meta)genomics☆34Updated last year
- TAXnomic Profile Aggregation and STAndardisation☆41Updated last week
- tool to determine optimal refrerence genome given a set of fasta files☆15Updated 2 years ago
- Organism-specific interpretation of AMR genotypes☆14Updated last year
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated last year
- Disty McMatrixface - compute a distance matrix from a core genome alignment file☆14Updated 2 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated 2 weeks ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆21Updated 3 weeks ago
- ☆20Updated last week
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19Updated last year
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated this week
- Visualize microbial evolution at the SNP level!☆15Updated 2 weeks ago
- ☆14Updated 4 years ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆38Updated last week
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆24Updated last year
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- Calculate assocations between genes and traits☆25Updated 5 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- CFSAN Shigella Typing Pipeline☆14Updated 2 years ago
- Parallel/Homoplasic SNP Finder☆21Updated 2 years ago