microbinfie-hackathon2020 / CSISLinks
Code Safety Inspection Service
☆20Updated 3 years ago
Alternatives and similar repositories for CSIS
Users that are interested in CSIS are comparing it to the libraries listed below
Sorting:
- Plasmid exploration of bacterial genomes☆23Updated 3 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Updated 4 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Updated last year
- A tool for removing redundant genomes from a set of assemblies☆78Updated 4 months ago
- post processing of bacterial pangenome gene presence/absence matrices☆63Updated last week
- Recombination-free trees☆63Updated 4 months ago
- Identify phage regions in bacterial genomes for masking purposes☆33Updated 6 years ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆32Updated last month
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆47Updated 3 months ago
- Influenza data pipeline to automate genotyping assignment☆39Updated 3 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 7 months ago
- a collection of scripts for organising bacterial genomes by species☆81Updated 3 years ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆54Updated 3 months ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆42Updated 4 years ago
- Order and orientation of complete bacterial genomes☆29Updated 6 months ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆61Updated last week
- SC2 variant detection and composition pipeline☆18Updated 2 years ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆52Updated last month
- Calculate assocations between genes and traits☆29Updated 10 months ago
- Split Kmer Analysis☆67Updated 3 years ago
- Bacterial surveillance pipeline.☆26Updated last month
- Predict plasmids from uncorrected long read data☆41Updated 2 months ago
- Assembly of Nanopore Sequencing☆17Updated 3 weeks ago
- SeqSero2☆39Updated 3 months ago
- Gene Absence Presence Identification tool.☆27Updated 10 months ago
- plasmidVerify: plasmid contig verification tool☆15Updated 5 years ago
- whole genome MLST analysis☆50Updated 7 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆32Updated 9 months ago
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆21Updated 2 years ago