Alternatives and similar repositories for EukRep_Pipeline

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

• allind / EukDetect
  ☆53Updated 2 months ago
• endixk / ezaai
  EzAAI - High Throughput Prokaryotic AAI Calculator
  ☆44Updated last month
• raw-lab / MetaCerberus
  Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…
  ☆60Updated 5 months ago
• aldertzomer / RFPlasmid
  Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf
  ☆49Updated last year
• wandreopoulos / deeplasmid
  ☆20Updated last year
• EBI-Metagenomics / EukCC
  Tool to estimate genome quality of microbial eukaryotes
  ☆37Updated last month
• AlexanderLabWHOI / EUKulele
  Automatic eukaryotic taxonomic classification
  ☆28Updated 4 months 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…
  ☆34Updated 2 years ago
• Serka-M / mmlong2
  Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes
  ☆52Updated last month
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆30Updated 10 months ago
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆75Updated 2 months ago
• AnantharamanLab / PropagAtE
  Prophage Activity Estimator
  ☆26Updated last year
• tseemann / phastaf
  Identify phage regions in bacterial genomes for masking purposes
  ☆34Updated 6 years ago
• leylabmpi / Struo
  Ley Lab MetaGenome Profiler DataBase generator
  ☆49Updated 2 years ago
• RasmussenLab / phamb
  Downstream processing of VAMB binning for Viral Elucidation
  ☆50Updated last year
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆62Updated last week
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆61Updated 6 months ago
• cjneely10 / EukMetaSanity
  Structural and functional annotation of eukaryotic metagenome-assembled genomes
  ☆22Updated 2 years ago
• cultivarium / MicrobeMod
  A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing
  ☆49Updated last week
• nekokoe / Plasmer
  An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.
  ☆47Updated 2 years ago
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆53Updated 5 years ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆76Updated last week
• mdsufz / MuDoGeR
  MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.
  ☆87Updated last year
• ziyewang / COMEBin
  ☆60Updated last year
• gbouras13 / dnaapler
  Reorients assembled microbial sequences
  ☆126Updated 3 weeks ago
• xthua / bacant
  This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.
  ☆21Updated 2 years ago
• linsalrob / PhiSpy
  Prediction of prophages from bacterial genomes
  ☆79Updated 3 months ago
• LottePronk / whokaryote
  Classify metagenomic contigs as eukaryotic or prokaryotic
  ☆39Updated 2 years ago
• Wanli-HE / Plaspline
  ☆20Updated 2 years ago
• MigleSur / GenAPI
  Gene Absence Presence Identification tool.
  ☆27Updated 5 months ago