flu-crew / parnasLinks
Phylogenetic maximum representation sampling: choosing most representative strains or taxa
☆38Updated last month
Alternatives and similar repositories for parnas
Users that are interested in parnas are comparing it to the libraries listed below
Sorting:
- Recombination-free trees☆58Updated 2 months ago
- Genome size estimation from long read overlaps☆56Updated last month
- Bacterial GWAS analysis☆40Updated last week
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 11 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆27Updated 7 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆51Updated last month
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated 3 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆29Updated 3 weeks ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆22Updated 2 years ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Calculate assocations between genes and traits☆23Updated 2 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- Gene-flank analysis tool☆27Updated 5 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 2 months ago
- ☆36Updated last month
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 10 months ago
- Plasmid analysis using rearrangement distances☆42Updated last week
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆45Updated last week
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- A Python library that exposes features from IQ-TREE - efficient software for phylogenomic inference☆29Updated this week
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆25Updated last month
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated last year
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- A python library for predicting phage lifestyle based on genome sequence☆37Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆36Updated last month
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆21Updated 8 months ago
- whole genome MLST analysis☆43Updated 2 months ago