Alternatives and similar repositories for TreeProfiler

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

• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆25Updated 2 years ago
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆21Updated last year
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆40Updated last month
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆27Updated 6 months ago
• gatech-genemark / MetaGeneMark-2
  MetaGeneMark-2: Improved Gene Prediction in Metagenomes
  ☆21Updated last year
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆59Updated last week
• rrwick / Verticall
  Recombination-free trees
  ☆58Updated 3 months ago
• nextgenusfs / funannotate2
  Eukaryotic genome annotation software.
  ☆18Updated this week
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆34Updated last year
• leylabmpi / Struo2
  Scalable creating/updating of metagenome profiling databases
  ☆61Updated 2 years ago
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆69Updated this week
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆48Updated 2 weeks ago
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆58Updated last year
• shandley / awesome-virome
  A listing of software, tools and databases useful for virome analysis
  ☆36Updated this week
• kussell-lab / mcorr
  Inferring bacterial recombination rates from large-scale sequencing datasets.
  ☆42Updated 2 years ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆38Updated 2 months ago
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆28Updated 2 years ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆49Updated 5 months ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆44Updated 4 years ago
• adamhockenberry / bacphlip
  A python library for predicting phage lifestyle based on genome sequence
  ☆38Updated last year
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆66Updated 7 months ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆65Updated 3 years ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 4 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated 2 years ago
• DessimozLab / FastOMA
  FastOMA is a scalable software package to infer orthology relationship.
  ☆76Updated last week
• drboothtj / getphylo
  a python package for automated generation of phylogenetic trees from genbank files
  ☆22Updated 3 months ago
• apcamargo / taxopy
  A Python package for obtaining complete lineages and the lowest common ancestor (LCA) from a set of taxonomic identifiers
  ☆50Updated 4 months ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆51Updated 2 months ago
• moshi4 / MGCplotter
  Microbial Genome Circular plotting tool for comparative genomics using Circos
  ☆38Updated 2 years ago
• endixk / ezaai
  EzAAI - High Throughput Prokaryotic AAI Calculator
  ☆42Updated 8 months ago