andersen-lab / Freyja
Depth-weighted De-Mixing
☆105Updated this week
Related projects ⓘ
Alternatives and complementary repositories for Freyja
- iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.☆118Updated last month
- CDCgov/mycosnp-nf☆37Updated 2 months ago
- SC2 variant detection and composition pipeline☆16Updated last year
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆124Updated last month
- snipit: summarise snps relative to your reference sequence☆149Updated last week
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆175Updated last week
- ☆119Updated 5 months ago
- Metagenomic classification of long-read sequencing data☆61Updated this week
- fastq to polished sequenses: pipeline suitable for mixed samples and long (Nanopore) reads☆43Updated 3 months ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆107Updated last week
- A pipeline for running AMRfinderPlus and collating results into functional classes☆71Updated 3 months ago
- A toolbox for comparative genomics.☆97Updated 3 years ago
- ☆11Updated 11 months ago
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆95Updated 2 months ago
- ☆34Updated 2 months ago
- ☆79Updated last year
- ☆68Updated 10 months ago
- Pairwise SNP distance matrix from a FASTA sequence alignment☆127Updated 8 months ago
- fast phage annotation program☆148Updated this week
- The ARTIC field bioinformatics pipeline☆116Updated last week
- SARS-CoV-2 (Va)riant (Qu)antification in s(E)wage, designed for (Ro)bustness☆13Updated this week
- DDBJ Fast Annotation and Submission Tool☆78Updated last month
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆93Updated last week
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆69Updated 5 months ago
- Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments☆30Updated last month
- BSR-Based Allele Calling Algorithm☆134Updated 2 weeks ago
- ☆20Updated 4 months ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆110Updated last year
- Sorts amplicons from Nanopore sequencing data based on similarity☆32Updated last month
- Reorients assembled microbial sequences☆98Updated last month