Alternatives and similar repositories for phylophlan

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

• cruizperez / MicrobeAnnotator
  Pipeline for metabolic annotation of microbial genomes
  ☆147Updated 2 months ago
• chklovski / CheckM2
  Assessing the quality of metagenome-derived genome bins using machine learning
  ☆211Updated 2 months ago
• gtonkinhill / panaroo
  An updated pipeline for pangenome investigation
  ☆303Updated 3 months ago
• barricklab / breseq
  breseq is a computational pipeline for finding mutations relative to a reference sequence in short-read DNA resequencing data. It is inte…
  ☆162Updated this week
• apcamargo / genomad
  geNomad: Identification of mobile genetic elements
  ☆238Updated 2 months ago
• linnabrown / run_dbcan
  Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for…
  ☆149Updated last month
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆230Updated 2 months ago
• MGXlab / CAT_pack
  CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…
  ☆212Updated last month
• gbouras13 / pharokka
  fast phage annotation program
  ☆163Updated 2 weeks ago
• tseemann / any2fasta
  Convert various sequence formats to FASTA
  ☆136Updated 2 years ago
• AstrobioMike / GToTree
  A user-friendly workflow for phylogenomics
  ☆213Updated last week
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆121Updated last year
• kblin / ncbi-acc-download
  Download files from NCBI Entrez by accession
  ☆123Updated 9 months ago
• motu-tool / mOTUs
  motus - a tool for marker gene-based OTU (mOTU) profiling
  ☆154Updated last year
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆116Updated 3 months ago
• rrwick / Perfect-bacterial-genome-tutorial
  ☆135Updated 11 months ago
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆146Updated last month
• soedinglab / metaeuk
  MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics
  ☆186Updated 10 months ago
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆127Updated 3 weeks ago
• MrOlm / inStrain
  Bioinformatics program inStrain
  ☆171Updated 3 weeks ago
• gamcil / cblaster
  Find clustered hits from a BLAST search
  ☆114Updated 6 months ago
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆139Updated last year
• medema-group / BiG-SCAPE
  Similarity networks of biosynthetic gene clusters
  ☆115Updated this week
• PacificBiosciences / pb-metagenomics-tools
  Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
  ☆189Updated 3 weeks ago
• tseemann / barrnap
  Bacterial ribosomal RNA predictor
  ☆245Updated last year
• wwood / singlem
  Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes
  ☆144Updated 2 weeks ago
• rrwick / Autocycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆137Updated this week
• xiezhq / ISEScan
  A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
  ☆95Updated last month
• CompSynBioLab-KoreaUniv / FunGAP
  FunGAP: fungal Genome Annotation Pipeline
  ☆111Updated last year
• bluenote-1577 / skani
  Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
  ☆198Updated 10 months ago