evolbioinfo / pastml
Ancestral character reconstruction and visualisation for rooted phylogenetic trees
☆32Updated last month
Related projects ⓘ
Alternatives and complementary repositories for pastml
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆30Updated 2 years ago
- spruceup☆20Updated 2 months ago
- ☆21Updated 10 years ago
- This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…☆32Updated last year
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆29Updated 3 weeks ago
- Python tool to reduce size and redundancy of phylogenetic datasets☆27Updated last year
- orthology assignment using phylogenetic and network analyses☆44Updated last month
- GATB Minia assembly pipeline☆29Updated last year
- A tool to identify and annotate homoplasies on a phylogeny and sequence alignment☆19Updated 3 years ago
- ☆27Updated 4 years ago
- MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree☆43Updated 4 years ago
- Simple scripts for concatenate alignments and rename terminals for phylogenetics☆21Updated 2 years ago
- A bioinformatics package for creating, filtering, and manipulating supermatrices and phylogenetic datasets using GenBank and/or local seq…☆42Updated 6 months ago
- a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies☆59Updated last week
- A massively parallel tool for model selection and tree inference on thousands of genes☆41Updated 8 months ago
- create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks☆38Updated 3 months ago
- Python HyPhy: Facilitating HyPhy execution and parsing☆21Updated 2 years ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆41Updated last year
- Implementation of the TreeShrink problem☆36Updated last month
- A tool to infer species tree and phylogenetic network from multilocus data☆32Updated 4 years ago
- Toolkit for Population Genetic Statistics from Pool-Sequenced Samples, e.g., in Evolve and Resequence experiments☆35Updated 2 weeks ago
- A statistical framework for ploidy estimation using NGS short-read data☆54Updated 6 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆52Updated last year
- ☆35Updated 3 months ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 5 years ago
- Correct and scaffold assemblies using long reads☆46Updated last year
- ASTRAL for PaRalogs and Orthologs☆19Updated 2 years ago
- Toolkit for preparing genomes for submission to NCBI☆29Updated 3 years ago
- Read, manipulate and visualize 'Pairwise mApping Format' data in R☆67Updated 3 years ago
- MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.☆44Updated this week