TheBrownLab / PhyloFisherLinks
PhyloFisher is a software package written in Python3 that can be used for the creation, analysis, and visualization of phylogenomic datasets that consist of eukaryotic protein sequences.
☆32Updated this week
Alternatives and similar repositories for PhyloFisher
Users that are interested in PhyloFisher are comparing it to the libraries listed below
Sorting:
- ☆71Updated last month
- BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins☆72Updated 9 months ago
- Mobile Genetic Elements Retrieving Tool☆15Updated last month
- a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies☆73Updated 3 weeks ago
- Wrapper for the genoPlotR R package. This wrapper makes phylogeny, genbank files and blast comparisons that is needed for the genoPLotR p…☆14Updated 3 years ago
- HGTphyloDetect is a versatile toolbox to identify horizontal gene transfer (HGT) events combined with phylogenetic analysis.☆39Updated 2 years ago
- Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.☆47Updated 3 months ago
- STAG: Species Tree from All Genes☆34Updated 6 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 4 months ago
- Alignment-based retrieval and concatenation of phylogenetic markers from whole genome sequence (WGS) data☆36Updated last year
- Sorts amplicons from Nanopore sequencing data based on similarity☆38Updated last month
- Using ggtree to build phylogenetic trees☆47Updated 8 months ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆72Updated last year
- Implementation of the TreeShrink problem☆46Updated 10 months ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆44Updated 2 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆70Updated 2 weeks ago
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆68Updated 4 years ago
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 5 years ago
- Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments☆107Updated last year
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆49Updated last month
- A pipeline for running AMRfinderPlus and collating results into functional classes☆79Updated 10 months ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆59Updated last year
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 3 years ago
- A tool for drawing ANI clustermap between all-vs-all microbial genomes☆84Updated 2 months ago
- Reorients assembled microbial sequences☆121Updated 3 months ago
- Microbial Populations as Clusters Of Gene Transfer☆44Updated last year
- The SYNY pipeline investigates synteny between species by reconstructing protein clusters from gene pairs.☆43Updated this week
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆96Updated 3 months ago
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆59Updated 2 months ago
- tiara – a tool for DNA sequence classification☆63Updated last year