pgfoster / p4-phylogeneticsLinks
A Python phyloinformatic toolkit, and an implementation of tree-heterogeneous models of evolution
☆30Updated 9 months ago
Alternatives and similar repositories for p4-phylogenetics
Users that are interested in p4-phylogenetics are comparing it to the libraries listed below
Sorting:
- A massively parallel tool for model selection and tree inference on thousands of genes☆50Updated last year
- PREQUAL: a pre-alignment quality filter for comparative sequence analyses☆32Updated 3 years ago
- Python HyPhy: Facilitating HyPhy execution and parsing☆21Updated 3 years ago
- Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a …☆47Updated 3 years ago
- STAG: Species Tree from All Genes☆34Updated 6 years ago
- Scripts for homology and orthology assessment from genomic sequences.☆19Updated 5 years ago
- orthology assignment using phylogenetic and network analyses☆47Updated 7 months ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆76Updated 9 years ago
- Generates an NCBI .tbl file of annotations on a genome.☆68Updated 7 years ago
- GATB Minia assembly pipeline☆30Updated 2 years ago
- This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…☆35Updated 2 years ago
- Conditional Reciprocal Best Blast☆42Updated 8 years ago
- use paired-end transcriptome reads to scaffold genomes☆11Updated 6 years ago
- A tool to root phylogenies☆22Updated last year
- spruceup☆25Updated last month
- In-depth characterization and annotation of differences between two sets of DNA sequences☆62Updated 5 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆58Updated 4 years ago
- Visualize whole genome alignments as linear maps☆73Updated 2 months ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- ☆22Updated 11 years ago
- A statistical framework for ploidy estimation using NGS short-read data☆61Updated 7 years ago
- a broadly applicable tool for automated gene identification and retrieval☆31Updated 10 months ago
- Code for computing various support scores for internodes☆19Updated 5 years ago
- A tool to infer species tree and phylogenetic network from multilocus data☆32Updated 5 years ago
- ☆33Updated 4 years ago
- A draft genome scaffolder that uses multiple reference genomes in a graph-based approach.☆45Updated 4 years ago
- a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies☆75Updated 2 weeks ago
- A toolkit for annotation of transposable element families from unassembled sequence reads☆30Updated 2 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- The final version 2 release of our software to detect core genes in eukaryotic genomes☆29Updated 10 years ago