CDCgov / mycosnp-nf
CDCgov/mycosnp-nf
☆37Updated 2 months ago
Related projects ⓘ
Alternatives and complementary repositories for mycosnp-nf
- A pipeline for running AMRfinderPlus and collating results into functional classes☆71Updated 3 months ago
- post processing of bacterial pangenome gene presence/absence matrices☆52Updated 2 months ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 2 years ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆39Updated 3 months ago
- Reorients assembled microbial sequences☆98Updated last month
- SeqSero2☆33Updated 7 months ago
- IS mapping software☆51Updated 2 years ago
- A MinION-based pipeline for tracking species biodiversity☆12Updated 9 months ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆25Updated last month
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 3 years ago
- Sorts amplicons from Nanopore sequencing data based on similarity☆32Updated last month
- SC2 variant detection and composition pipeline☆16Updated last year
- A tool for removing redundant genomes from a set of assemblies☆68Updated last year
- whole genome MLST analysis☆38Updated 6 months ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆107Updated last week
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated 7 months ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆38Updated 5 months ago
- A toolbox for comparative genomics.☆97Updated 3 years ago
- ☆44Updated 2 weeks ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆51Updated 6 months ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆40Updated last year
- ☆79Updated last year
- Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.☆37Updated 4 years ago
- Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …☆26Updated last year
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆27Updated 4 years ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆93Updated this week
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆61Updated 4 years ago
- Detection of pseudogene candidates in bacterial and archaeal genomes.☆45Updated 7 months ago
- Mobile Genetic Elements Retrieving Tool☆15Updated 2 years ago
- Kraken output generates a report for each datasets, this script takes these individual output and combines it to one file, where each col…☆20Updated 3 months ago