Alternatives and similar repositories for nf-flu

Users that are interested in nf-flu are comparing it to the libraries listed below

• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆86Updated 3 years ago
• pauloluniyi / VGEA
  VGEA (Viral Genomes Easily Analyzed) is a pipeline for analysis of RNA virus next-generation sequencing data.
  ☆20Updated 4 years ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆55Updated 5 months ago
• drboothtj / getphylo
  a python package for automated generation of phylogenetic trees from genbank files
  ☆23Updated last month
• Stephane-S / Simplot_PlusPlus
  ☆39Updated 2 years ago
• BeatsonLab-MicrobialGenomics / micropipe
  A pipeline for high-quality bacterial genome construction using ONT sequencing
  ☆39Updated 3 years ago
• jonas-fuchs / varVAMP
  Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
  ☆45Updated 4 months ago
• jonas-fuchs / SARS-CoV-2-analyses
  Collection of R scripts for SARS-CoV-2 (variant) analyses
  ☆12Updated 2 years ago
• happykhan / BRIG
  BRIG is a cross-platform (Windows/Mac/Unix) application that can display circular comparisons between a large number of genomes, with a f…
  ☆37Updated 6 years ago
• cmmr / EsViritu
  Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data
  ☆48Updated 2 weeks ago
• bhattlab / phanta
  Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes
  ☆67Updated last week
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated last month
• fmenardo / Treemmer
  Python tool to reduce size and redundancy of phylogenetic datasets
  ☆48Updated last week
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆32Updated last year
• Serka-M / Digester-MultiSequencing
  Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing
  ☆21Updated 2 years ago
• cjneely10 / MetaSanity
  Pipeline for major biological analyses.
  ☆35Updated 3 years ago
• refresh-bio / vclust
  Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes
  ☆95Updated 6 months ago
• cidgoh / bacpaq
  Bacterial Genomics workflow for short(Illumina) and long-read (Oxford Nanopore) sequencing data
  ☆12Updated 6 months ago
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆29Updated 2 years ago
• liaoherui / StrainScan
  High-resolution strain-level microbiome composition analysis tool based on reference genomes and k-mers
  ☆43Updated last year
• ku-cbd / PhageBoost
  Rapid discovery of novel prophages using biological feature engineering and machine learning
  ☆36Updated 11 months ago
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆70Updated last month
• GreyGuoweiChen / VirBot
  VirBot: a protein-based RNA virus detector for metagenomic data
  ☆34Updated last year
• PedroMTQ / mantis
  A package to annotate protein sequences
  ☆60Updated 9 months ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆96Updated 2 months ago
• compgenomicslab / TreeProfiler
  tree visualization for tree + annotation data
  ☆43Updated 5 months ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆34Updated 11 months ago
• chmccarthy / Pangloss
  Pangenome analysis of eukaryotes.
  ☆20Updated 5 years ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆70Updated 3 weeks ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆27Updated 2 years ago