Alternatives and similar repositories for octapus:

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

• Microbiology / ccontigs
  Detect contigs of complete circular genomes
  ☆22Updated 5 years ago
• moritzbuck / mOTUlizer
  Utility to analyse a group of closely related MAgs/Genomes/bins/SUBs of more or less dubious origin
  ☆14Updated 6 months ago
• SegataLab / viromeqc
  ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichmen…
  ☆18Updated 2 years ago
• Kalan-Lab / codoff
  codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, phage, etc.) relative to the fu…
  ☆11Updated 7 months ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆21Updated 2 months ago
• aweimann / traitar
  ☆22Updated last year
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆27Updated 2 weeks ago
• yosuken / ViPTreeGen
  a command line tool for viral proteomic tree generation, part of the ViPTree project: http://www.genome.jp/viptree
  ☆27Updated 2 years ago
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆25Updated 2 years ago
• AfZheng126 / MORA
  MetagenOmic read Re-Assigner and abundance quantifier
  ☆18Updated last month
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 5 years ago
• fpusan / SuperPang
  Non-redundant pangenome assemblies from multiple genomes or bins
  ☆13Updated last month
• bacpop / CELEBRIMBOR
  Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs
  ☆23Updated 8 months ago
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆22Updated 2 years ago
• pereiramemo / BiG-MEx
  BiG-MEx implementation as Docker images and R packages
  ☆13Updated 3 years ago
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆30Updated last week
• althonos / pysylph
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆18Updated 3 months ago
• rpetit3 / pasty
  A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates
  ☆12Updated 7 months ago
• NorwegianVeterinaryInstitute / ALPPACA
  A tooL for Prokaryotic Phylogeny And Clustering Analysis
  ☆11Updated last month
• oschwengers / tadrep
  Targeted Detection and Reconstruction of Plasmids
  ☆20Updated 10 months ago
• lskatz / adapterseqs
  A repo with just adapter sequences
  ☆14Updated 2 months ago
• AlexanderLabWHOI / EUKulele
  Automatic eukaryotic taxonomic classification
  ☆28Updated 2 weeks ago
• statdivlab / groves
  Tools for analyzing trees
  ☆14Updated last year
• shandley / awesome-virome
  A listing of software, tools and databases useful for virome analysis
  ☆19Updated this week
• qiyunlab / binarena
  BinaRena: Interactive Visualization and Binning of Metagenomic Contigs
  ☆31Updated 7 months ago
• nick-youngblut / traitar3
  From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)
  ☆22Updated 8 months ago
• stjacqrm / centroid
  tool to determine optimal refrerence genome given a set of fasta files
  ☆14Updated last year
• tylerbarnum / perchlorate-metagenome-2018
  Scripts used in the publication Tyler P. Barnum, Israel A. Figueroa, Charlotte I. Carlström, Lauren N. Lucas, Anna L. Engelbrektson, and …
  ☆10Updated 5 years ago
• santeripuranen / SpydrPick
  SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
  ☆13Updated 2 years ago
• yosuken / ccfind
  ccfind - circular complete genome finder with clues of terminal redundancy
  ☆15Updated 4 years ago