Alternatives and similar repositories for physpetools

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

• balabanmetin / uDance
  ☆44Updated last year
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆60Updated last year
• rega-cev / virulign
  VIRULIGN: fast codon-correct alignment and annotation of viral genomes
  ☆35Updated 4 years ago
• agmcfarland / GeneGrouper
  CLI tool for finding gene clusters in many genomes and placing them in discrete groups based on gene content similarity.
  ☆19Updated last year
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆24Updated 3 years ago
• JLSteenwyk / orthohmm
  Improved Inference of Ortholog Groups using Hidden Markov Models
  ☆37Updated 4 months ago
• Gardner-BinfLab / deltaBS
  Quantifying the significance of genetic variation using probabilistic profile-based methods.
  ☆19Updated 4 years ago
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆70Updated 2 months ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆55Updated 7 months ago
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆88Updated 3 years ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆27Updated 2 years ago
• santeripuranen / SpydrPick
  SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
  ☆15Updated 3 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆33Updated last year
• liaoherui / VirStrain
  An RNA virus strain-level identification tool for short reads.
  ☆23Updated this week
• biobakery / shortbred
  ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then sear…
  ☆31Updated last year
• zheminzhou / PEPPAN
  Phylogeny Enhanded Prediction of PAN-genome
  ☆43Updated 5 years ago
• biocore / wol
  Reference Phylogeny for Bacterial and Archaeal Genomes
  ☆25Updated 5 months ago
• adamd3 / BactSeq
  A nextflow pipeline for performing bacterial RNA-Seq data analysis.
  ☆12Updated 3 months ago
• sanger-pathogens / mlst_check
  Multilocus sequence typing by blast using the schemes from PubMLST
  ☆30Updated 3 years ago
• flass / pantagruel
  a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome
  ☆50Updated 3 years ago
• larssnip / HumGut
  A healthy human gut genome collection
  ☆25Updated 5 months ago
• sanger-pathogens / seroba
  k-mer based Pipeline to identify the Serotype from Illumina NGS reads
  ☆26Updated 2 years ago
• xfengnefx / hifiasm-meta
  hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.
  ☆69Updated 2 months ago
• metasnv-tool / metaSNV
  MetaSNV, a metagenomic SNV calling pipeline.
  ☆20Updated 3 years ago
• LKremer / MSA_trimmer
  Straightforward & minimalistic removal of poorly aligned regions in sequence alignments.
  ☆17Updated 6 years ago
• evolbioinfo / booster
  ☆28Updated 5 years ago
• Shenhav-and-Korem-labs / SCRuB
  ☆32Updated last year
• gamcil / clustermap.js
  ☆31Updated 4 years ago
• deng-lab / viroprofiler
  A containerized bioinformatics pipeline for viral metagenomic data analysis
  ☆37Updated last year
• MadsAlbertsen / mmgenome
  Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes
  ☆27Updated 8 years ago