Alternatives and similar repositories for OpenRDP

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

• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆50Updated 3 months ago
• fmenardo / Treemmer
  Python tool to reduce size and redundancy of phylogenetic datasets
  ☆44Updated 2 years ago
• 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
  ☆111Updated this week
• wwood / galah
  More scalable dereplication for metagenome assembled genomes
  ☆63Updated last week
• jhawkey / IS_mapper
  IS mapping software
  ☆56Updated 3 years ago
• apcamargo / taxopy
  A Python package for obtaining complete lineages and the lowest common ancestor (LCA) from a set of taxonomic identifiers
  ☆51Updated 6 months ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆87Updated 2 weeks ago
• filip-husnik / pseudofinder
  Detection of pseudogene candidates in bacterial and archaeal genomes.
  ☆50Updated last year
• moshi4 / COGclassifier
  A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category
  ☆70Updated 3 months ago
• soedinglab / WIsH
  Predict prokaryotic host for phage metagenomic sequences
  ☆52Updated 10 months ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆70Updated 4 years ago
• bede / hostile
  Precise host read removal
  ☆103Updated last month
• raw-lab / MetaCerberus
  Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…
  ☆59Updated 3 months ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆38Updated 4 months ago
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆100Updated last week
• BigDataBiology / argNorm
  ARG normalization by mapping to the ARO ontology.
  ☆58Updated last week
• JLSteenwyk / ClipKIT
  a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference
  ☆78Updated this week
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆95Updated 10 months ago
• deprekate / PHANOTATE
  PHANOTATE: a gene caller for phages.
  ☆78Updated 8 months ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆50Updated 6 months ago
• soedinglab / spacepharer
  SpacePHARER CRISPR Spacer Phage-Host pAiRs findER
  ☆41Updated last year
• AllTheBacteria / AllTheBacteria
  Follow up to Grace Blackwell's 661k dataset, for 2023
  ☆109Updated last month
• linsalrob / PhiSpy
  Prediction of prophages from bacterial genomes
  ☆79Updated last month
• metagenlab / mummer2circos
  Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments
  ☆107Updated last year
• moshi4 / ANIclustermap
  A tool for drawing ANI clustermap between all-vs-all microbial genomes
  ☆84Updated 3 months ago
• evolbioinfo / goalign
  Goalign is a set of command line tools and an API to manipulate multiple sequence alignments. It is implemented in Go language.
  ☆86Updated 2 weeks 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 4 months ago
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆79Updated 11 months ago
• cmkobel / CompareM2
  🦠🧬🧑‍💻📇 Microbial genomes-to-report pipeline
  ☆59Updated this week