Alternatives and similar repositories for PhyloFisher:

Users that are interested in PhyloFisher are comparing it to the libraries listed below

• fethalen / Patchwork
  Alignment-based retrieval and concatenation of phylogenetic markers from whole genome sequence (WGS) data
  ☆35Updated 11 months ago
• jamiemcg / BUSCO_phylogenomics
  BUSCO Phylogenomics | Utility script to construct species phylogenies using BUSCO proteins
  ☆63Updated 5 months ago
• davidemms / STAG
  STAG: Species Tree from All Genes
  ☆34Updated 6 years ago
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆58Updated last year
• JLSteenwyk / PhyKIT
  a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies
  ☆68Updated 3 months ago
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆60Updated 2 months ago
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆40Updated 4 months ago
• PuttickMacroevolution / MCMCtreeR
  MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree
  ☆45Updated 5 years ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆59Updated last month
• raw-lab / MetaCerberus
  Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…
  ☆55Updated 3 weeks ago
• DessimozLab / OMArk
  ☆71Updated 3 weeks ago
• PombertLab / SYNY
  The SYNY pipeline investigates synteny between species by reconstructing protein clusters from gene pairs.
  ☆40Updated this week
• rhysf / Synima
  Synteny Imager
  ☆61Updated 7 months ago
• SysBioChalmers / HGTphyloDetect
  HGTphyloDetect is a versatile toolbox to identify horizontal gene transfer (HGT) events combined with phylogenetic analysis.
  ☆36Updated 2 years ago
• endixk / ezaai
  EzAAI - High Throughput Prokaryotic AAI Calculator
  ☆38Updated 5 months ago
• ThomasArn / genoPlotR_wrapper
  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
• moshi4 / COGclassifier
  A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category
  ☆62Updated 6 months ago
• nekokoe / Plasmer
  An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.
  ☆43Updated last year
• mrmckain / Fast-Plast
  Automated de novo assembly of whole chloroplast genomes.
  ☆45Updated 6 months ago
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆47Updated 2 months ago
• egonozer / in_silico_pcr
  Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.
  ☆41Updated 4 years ago
• andrewgull / MGERT
  Mobile Genetic Elements Retrieving Tool
  ☆15Updated 3 years ago
• BenoitMorel / GeneRax
  ☆71Updated last year
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆66Updated 7 years ago
• filip-husnik / pseudofinder
  Detection of pseudogene candidates in bacterial and archaeal genomes.
  ☆47Updated last year
• songweizhi / MetaCHIP
  Horizontal gene transfer (HGT) identification pipeline
  ☆57Updated last year
• GDKO / AvP
  Automatic evaluation of HGTs
  ☆28Updated 2 months ago
• uym2 / TreeShrink
  Implementation of the TreeShrink problem
  ☆40Updated 6 months ago
• Gaius-Augustus / TSEBRA
  TSEBRA: Transcript Selector for BRAKER
  ☆47Updated 4 months ago
• kussell-lab / mcorr
  Inferring bacterial recombination rates from large-scale sequencing datasets.
  ☆42Updated 2 years ago