Alternatives and similar repositories for sistr_cmd

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

• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆36Updated 4 years ago
• aldertzomer / RFPlasmid
  Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf
  ☆50Updated last year
• BU-ISCIII / plasmidID
  PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…
  ☆42Updated 4 years ago
• katholt / RedDog
  ☆37Updated 3 years ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆77Updated 3 months ago
• wandreopoulos / deeplasmid
  ☆20Updated last year
• nekokoe / Plasmer
  An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.
  ☆49Updated 2 years ago
• denglab / SeqSero2
  SeqSero2
  ☆39Updated 2 months ago
• MicrobialDarkMatter / nanomotif
  Nanomotif - a tool for identifying methylated motifs in metagenomic samples
  ☆34Updated last month
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆63Updated 10 months ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆66Updated 3 years ago
• tseemann / phastaf
  Identify phage regions in bacterial genomes for masking purposes
  ☆34Updated 6 years ago
• Shamir-Lab / SCAPP
  SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…
  ☆35Updated 2 years ago
• zheminzhou / EToKi
  all methods related to Enterobase
  ☆44Updated last year
• MigleSur / GenAPI
  Gene Absence Presence Identification tool.
  ☆27Updated 9 months ago
• labgem / PlaScope
  Plasmid exploration of bacterial genomes
  ☆23Updated 3 years ago
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆35Updated last year
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆52Updated 3 weeks ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 4 years ago
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆64Updated 6 months ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆50Updated 6 months ago
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆54Updated last year
• avierstr / amplicon_sorter
  Sorts amplicons from Nanopore sequencing data based on similarity
  ☆40Updated 2 months ago
• andrewgull / MGERT
  Mobile Genetic Elements Retrieving Tool
  ☆16Updated 7 months ago
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆90Updated 3 weeks ago
• Serka-M / mmlong2
  Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes
  ☆55Updated 2 months ago
• UPHL-BioNGS / Donut_Falls
  Assembly of Nanopore Sequencing
  ☆17Updated last month
• jhawkey / IS_mapper
  IS mapping software
  ☆57Updated 4 years ago
• LomanLab / EBAME18
  Long read metagenomics practical at EBAME18
  ☆18Updated 7 years ago
• leylabmpi / Struo
  Ley Lab MetaGenome Profiler DataBase generator
  ☆50Updated 3 years ago