Alternatives and similar repositories for V-pipe

Users that are interested in V-pipe are comparing it to the libraries listed below

• sunbeam-labs / sunbeam
  A robust, extensible metagenomics pipeline
  ☆173Updated last week
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆141Updated 2 years ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆142Updated 3 months ago
• HadrienG / InSilicoSeq
  A sequencing simulator
  ☆211Updated 4 months ago
• andersen-lab / ivar
  iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.
  ☆128Updated this week
• kblin / ncbi-acc-download
  Download files from NCBI Entrez by accession
  ☆129Updated last year
• nf-core / viralrecon
  Assembly and intrahost/low-frequency variant calling for viral samples
  ☆144Updated last week
• linsalrob / fastq-pair
  Match up paired end fastq files quickly and efficiently.
  ☆152Updated last year
• nf-core / fetchngs
  Pipeline to fetch metadata and raw FastQ files from public databases
  ☆183Updated 2 weeks ago
• broadinstitute / catch
  A package for designing compact and comprehensive capture probe sets.
  ☆89Updated last year
• BenLangmead / aws-indexes
  Catalog of genomic indexes freely available from public clouds
  ☆64Updated 2 months ago
• OpenGene / fastv
  An ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. This tool can be used to detect viral infect…
  ☆117Updated 2 years ago
• DessimozLab / read2tree
  a tool for inferring species tree from sequencing reads
  ☆152Updated last month
• aineniamh / snipit
  snipit: summarise snps relative to your reference sequence
  ☆162Updated last month
• urmi-21 / orfipy
  Fast and flexible ORF finder
  ☆76Updated 3 years ago
• motu-tool / mOTUs
  motus - a tool for marker gene-based OTU (mOTU) profiling
  ☆161Updated last year
• fbreitwieser / krakenuniq
  🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results
  ☆240Updated last year
• CAMI-challenge / CAMISIM
  CAMISIM: Simulating metagenomes and microbial communities
  ☆216Updated last month
• biocorecrg / master_of_pores
  Nextflow pipeline for analysis of direct RNA Nanopore reads
  ☆108Updated 4 months ago
• moiexpositoalonsolab / grenepipe
  A flexible, scalable, and reproducible pipeline to automate variant calling from raw sequence reads, with lots of bells and whistles - fo…
  ☆108Updated 4 months ago
• AstrobioMike / GToTree
  A user-friendly workflow for phylogenomics
  ☆221Updated last week
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆126Updated 4 years ago
• sequana / sequana
  Sequana: a set of Snakemake NGS pipelines
  ☆148Updated 2 weeks ago
• barricklab / breseq
  breseq is a computational pipeline for finding mutations relative to a reference sequence using high-throughput DNA resequencing data. It…
  ☆172Updated 3 months ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆173Updated last year
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆109Updated 2 years ago
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆326Updated 6 months ago
• nf-core / taxprofiler
  Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
  ☆168Updated this week
• PacificBiosciences / pb-metagenomics-tools
  Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
  ☆195Updated last month
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆248Updated last year