Alternatives and similar repositories for geneshot

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

• chrisquince / STRONG
  Strain Resolution ON Graphs
  ☆48Updated last year
• ohlab / SMEG
  Strain-level Metagenomic Estimation of Growth rate (SMEG) measures growth rates of microbial strains from complex metagenomic dataset
  ☆20Updated 5 years ago
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆61Updated last year
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆42Updated 4 years ago
• CAMI-challenge / OPAL
  OPAL: Open-community Profiling Assessment tooL
  ☆29Updated 6 months ago
• PedroMTQ / mantis
  A package to annotate protein sequences
  ☆59Updated 4 months ago
• leylabmpi / Struo2
  Scalable creating/updating of metagenome profiling databases
  ☆61Updated 3 weeks ago
• rega-cev / virulign
  VIRULIGN: fast codon-correct alignment and annotation of viral genomes
  ☆35Updated 4 years ago
• BeatsonLab-MicrobialGenomics / micropipe
  A pipeline for high-quality bacterial genome construction using ONT sequencing
  ☆39Updated 2 years ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆30Updated 3 months ago
• FredHutch / FAMLI
  Functional Analysis of Metagenomes by Likelihood Inference
  ☆17Updated 5 years ago
• snayfach / IGGsearch
  Metagenomic species profiling with enhanced coverage of the human gut microbiome
  ☆25Updated last year
• Ecogenomics / gtdb-species-clusters
  Toolkit for establishing, updating, and validating GTDB species clusters
  ☆21Updated last month
• edgraham / BinSanity
  Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation
  ☆31Updated 4 years ago
• CAMI-challenge / AMBER
  AMBER: Assessment of Metagenome BinnERs
  ☆31Updated 6 months ago
• linsalrob / partie
  PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied ann…
  ☆26Updated 2 years ago
• MetaSUB / MetaSUB_CAP
  A comprehensive pipeline for short read metagenomic data
  ☆24Updated 4 years ago
• jonas-fuchs / varVAMP
  Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
  ☆40Updated last month
• functional-dark-side / agnostos-wf
  ☆45Updated 2 years ago
• lmlui / Jorg
  MAG Circularization Method
  ☆33Updated 3 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆29Updated last year
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆69Updated last month
• leylabmpi / DeepMAsED
  Deep learning for Metagenome Assembly Error Detection
  ☆26Updated 4 years ago
• sanger-pathogens / seroba
  k-mer based Pipeline to identify the Serotype from Illumina NGS reads
  ☆24Updated 2 years ago
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆47Updated 2 years ago
• pollardlab / MIDAS
  Metagenomic Intra-Species Diversity Analysis (MIDAS)
  ☆38Updated 10 months ago
• DrMicrobit / mira
  MIRA sequence assembler
  ☆29Updated 6 months ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆48Updated 2 weeks ago
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆85Updated 2 years ago
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆28Updated 3 months ago