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
  ☆93Updated this week
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆78Updated 3 weeks ago
• nf-core / readsimulator
  A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
  ☆32Updated 5 months ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆95Updated last month
• neherlab / pangraph
  A bioinformatic toolkit to align genome assemblies into pangenome graphs
  ☆115Updated last week
• GATB / simka
  Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.
  ☆50Updated 3 years ago
• pirovc / ganon
  ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…
  ☆102Updated 6 months ago
• rrwick / Metagenomics-Index-Correction
  ☆84Updated 2 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 7 months ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆62Updated 8 months ago
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆85Updated 2 years ago
• metashot / awemags
  aweMAGs: a fully automated workflow for eukariotic MAGs
  ☆16Updated 2 years ago
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆98Updated 6 months ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆87Updated 6 months ago
• 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
• jhawkey / IS_mapper
  IS mapping software
  ☆57Updated 3 years ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆96Updated 3 weeks ago
• vinuesa / get_phylomarkers
  A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concat…
  ☆59Updated 9 months ago
• ctmrbio / stag-mwc
  StaG Metagenomic Workflow Collaboration
  ☆28Updated last year
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆100Updated 2 months ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 4 years ago
• oschwengers / asap
  A scalable bacterial genome assembly, annotation and analysis pipeline
  ☆75Updated last year
• BigDataBiology / argNorm
  ARG normalization by mapping to the ARO ontology.
  ☆59Updated 3 months ago
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆101Updated 3 years ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆77Updated 2 months ago
• meringlab / FlashWeave.jl
  Inference of microbial interaction networks from large-scale heterogeneous abundance data
  ☆89Updated last month
• pierrebarbera / epa-ng
  Massively parallel phylogenetic placement of genetic sequences
  ☆84Updated 3 years ago
• nf-core / taxprofiler
  Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
  ☆168Updated this week
• amkozlov / sativa
  Semi-Automatic Taxonomy Improvement and Validation Algorithm
  ☆18Updated last year