flu-crew / parnas
Phylogenetic maximum representation sampling: choosing most representative strains or taxa
☆37Updated 3 months ago
Alternatives and similar repositories for parnas:
Users that are interested in parnas are comparing it to the libraries listed below
- Influenza data pipeline to automate genotyping assignment☆29Updated last month
- Recombination-free trees☆57Updated last year
- Evaluating Nanopore-based bacterial variant calling☆16Updated 3 months ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆44Updated 2 weeks ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆27Updated 5 months ago
- Genome size estimation from long read overlaps☆51Updated 3 months ago
- A python library for predicting phage lifestyle based on genome sequence☆36Updated last year
- Fast pairwise transmission inference from single genome and/or metagenomic data☆19Updated 5 months ago
- Plasmid analysis using rearrangement distances☆40Updated 4 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 8 months ago
- a python library that exposes features from iqtree2 - efficient software for phylogenomic inference☆27Updated this week
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆28Updated 8 months ago
- Calculate assocations between genes and traits☆23Updated 2 weeks ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆50Updated 8 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆56Updated 3 weeks ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Bacterial GWAS analysis☆37Updated 2 weeks ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆36Updated 2 weeks ago
- ☆35Updated 3 weeks ago
- ☆17Updated 9 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆32Updated 3 months ago
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆23Updated 11 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆33Updated last month
- Split Kmer Analysis☆62Updated 2 years ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆25Updated last week
- Remove human reads from a sequencing run☆38Updated 5 months ago
- Resolving Species Level Classification Using Emu☆12Updated 9 months ago