microbinfie-hackathon2020 / CSISLinks
Code Safety Inspection Service
☆20Updated 2 years ago
Alternatives and similar repositories for CSIS
Users that are interested in CSIS are comparing it to the libraries listed below
Sorting:
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Updated last year
- Recombination-free trees☆59Updated 5 months ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆50Updated last month
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- a collection of scripts for organising bacterial genomes by species☆77Updated 3 years ago
- A tool for removing redundant genomes from a set of assemblies☆76Updated 2 years ago
- whole genome MLST analysis☆46Updated 2 months ago
- Order and orientation of complete bacterial genomes☆28Updated last month
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆37Updated 2 months ago
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 6 months ago
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆74Updated last year
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆60Updated 2 months ago
- in silico typing of the H. influenzae cap locus☆12Updated last year
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- Identify phage regions in bacterial genomes for masking purposes☆34Updated 5 years ago
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆34Updated 2 years ago
- Bacterial surveillance pipeline.☆25Updated 2 months ago
- Plasmid exploration of bacterial genomes☆18Updated 3 years ago
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆42Updated 4 years ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- SeqSero2☆38Updated last year
- ☆20Updated 11 months ago
- Nextflow Pipeline for processing Streptococcus pneumoniae sequencing raw reads (FASTQ files) by the GPS Project (Global Pneumococcal Sequ…☆17Updated last week
- A toolkit for prokaryotic comparative genomics☆50Updated 7 months ago
- Reorients assembled microbial sequences☆125Updated last week
- Split Kmer Analysis☆65Updated 3 years ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆44Updated 3 weeks ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆30Updated 10 months ago
- Assembly of Nanopore Sequencing☆16Updated 3 weeks ago