Alternatives and similar repositories for metatdenovo

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

• nf-core / funcscan
  (Meta-)genome screening for functional and natural product gene sequences
  ☆97Updated this week
• nf-core / readsimulator
  A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
  ☆32Updated 6 months ago
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆80Updated last month
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆85Updated 2 years ago
• neherlab / pangraph
  A bioinformatic toolkit to align genome assemblies into pangenome graphs
  ☆117Updated last month
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆96Updated 2 months ago
• oschwengers / asap
  A scalable bacterial genome assembly, annotation and analysis pipeline
  ☆75Updated 2 years ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆90Updated 3 weeks ago
• raw-lab / MetaCerberus
  Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…
  ☆63Updated last week
• SegataLab / panphlan
  PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
  ☆46Updated 2 years ago
• metashot / awemags
  aweMAGs: a fully automated workflow for eukariotic MAGs
  ☆18Updated 2 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• rhysnewell / Lorikeet
  Strain resolver for metagenomics
  ☆78Updated last year
• jhawkey / IS_mapper
  IS mapping software
  ☆57Updated 4 years ago
• GATB / simka
  Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.
  ☆51Updated 3 years ago
• ncbi / rapt
  This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.
  ☆58Updated 8 months ago
• rrwick / Metagenomics-Index-Correction
  ☆84Updated 2 years ago
• BigDataBiology / argNorm
  ARG normalization by mapping to the ARO ontology.
  ☆62Updated 4 months ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆63Updated 9 months ago
• fmalmeida / bacannot
  Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.
  ☆104Updated 3 weeks ago
• grp-bork / gunc
  Python package for detection of chimerism and contamination in prokaryotic genomes.
  ☆78Updated 2 years ago
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆68Updated 3 years ago
• kussell-lab / mcorr
  Inferring bacterial recombination rates from large-scale sequencing datasets.
  ☆42Updated 2 years ago
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆32Updated 2 weeks ago
• bhattlab / phanta
  Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes
  ☆67Updated 2 weeks ago
• bede / hostile
  Precise host read removal
  ☆110Updated 3 months ago
• fmalmeida / MpGAP
  Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
  ☆64Updated last year
• vgl-hub / gfastats
  A single fast and exhaustive tool for summary statistics and simultaneous *fa* (fasta, fastq, gfa [.gz]) genome assembly file manipulatio…
  ☆120Updated 6 months ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated 2 months ago
• vrmarcelino / CCMetagen
  Microbiome classification pipeline
  ☆65Updated 7 months ago