fmenardo / TreemmerLinks
Python tool to reduce size and redundancy of phylogenetic datasets
☆41Updated 2 years ago
Alternatives and similar repositories for Treemmer
Users that are interested in Treemmer are comparing it to the libraries listed below
Sorting:
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆58Updated last month
- a python package for automated generation of phylogenetic trees from genbank files☆22Updated 2 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆59Updated last week
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆48Updated 3 weeks ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆41Updated 7 months ago
- lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters☆37Updated last month
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆64Updated 2 weeks ago
- A workflow and scripts for large-scale antiSMASH analyses☆41Updated 2 months ago
- Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes☆79Updated 2 weeks ago
- Predict the function of phage hypothetical proteins using an LSTM model trained with Phage Synteny☆50Updated 5 months ago
- Exploring the "dusk matter" of the RNA virosphere☆35Updated 3 years ago
- FastOMA is a scalable software package to infer orthology relationship.☆76Updated this week
- IQ-TREE version 3: software for phylogenetics☆47Updated last week
- genEra is a fast and easy-to-use command-line tool that estimates the age of the last common ancestor of protein-coding gene families.☆50Updated 6 months ago
- PHANOTATE: a gene caller for phages.☆76Updated 6 months ago
- BRIG is a cross-platform (Windows/Mac/Unix) application that can display circular comparisons between a large number of genomes, with a f…☆34Updated 6 years ago
- A fork of Prodigal meant to improve gene calling for giant viruses and viruses that use alternative genetic codes☆36Updated last year
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- Eukaryotic genome annotation software.☆18Updated last week
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆58Updated last year
- Providing up-to-date phage genome databases, metrics and useful input files for a number of bioinformatic pipelines.☆68Updated last month
- Tool to estimate genome quality of microbial eukaryotes☆37Updated 4 months ago
- A python library for predicting phage lifestyle based on genome sequence☆37Updated last year
- Prediction of apoplastic and cytoplasmic effectors in fungi and oomycetes☆21Updated 3 years ago
- A toolkit for prokaryotic comparative genomics☆49Updated 4 months ago
- Discover and annotate the virome☆42Updated last month
- SHOOT.bio - the phylogenetic search engine☆24Updated 2 years ago
- ☆71Updated last month
- a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies☆73Updated last month
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 5 years ago