Alternatives and similar repositories for nanopipe2

Users that are interested in nanopipe2 are comparing it to the libraries listed below

• nanoporetech / pipeline-umi-amplicon
  Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers
  ☆33Updated last year
• Serka-M / Digester-MultiSequencing
  Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing
  ☆21Updated 2 years ago
• broadinstitute / GATK-for-Microbes
  ☆28Updated 3 years ago
• B-UMMI / long-read-catalog
  catalog for long-read sequencing tools
  ☆32Updated 2 years ago
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆60Updated 5 years ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆47Updated 6 months ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆70Updated 3 years ago
• wdecoster / nanolyse
  Remove lambda phage reads from a fastq file
  ☆29Updated 2 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆44Updated 4 years ago
• CAMI-challenge / OPAL
  OPAL: Open-community Profiling Assessment tooL
  ☆28Updated 5 months ago
• elimoss / metagenomics_workflows
  Workflows for metagenomic sequence data processing and analysis.
  ☆17Updated 5 years ago
• fanglab / mbin
  mBin: a methylation-based binning framework for metagenomic SMRT sequencing reads
  ☆25Updated 2 years ago
• jonas-fuchs / varVAMP
  Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
  ☆37Updated 3 weeks ago
• timplab / nanopore-methylation-utilities
  ☆29Updated 4 years ago
• nanoporetech / ont_tutorial_basicqc
  A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txt
  ☆30Updated 4 years ago
• rsemeraro / PyPore
  A python tool box for fast and accurate quality control, conversion and alignment of nanopore sequencing data
  ☆20Updated 3 years ago
• OpenGene / UniqueKMER
  Generate unique KMERs for every contig in a FASTA file
  ☆48Updated 2 years ago
• ArifaKhanLab / RVDB
  A reference viral database (RVDB)
  ☆26Updated 6 years ago
• sanger-pathogens / seroba
  k-mer based Pipeline to identify the Serotype from Illumina NGS reads
  ☆24Updated last year
• cerebis / bin3C
  Extract metagenome-assembled genomes (MAGs) from metagenomic data using Hi-C.
  ☆23Updated 3 weeks ago
• cpockrandt / PhyloCSFpp
  PhyloCSF++ computes PhyloCSF tracks for whole-genome multiple sequence alignments, scores single MSA, annotates CDS features in GFF/GTF f…
  ☆31Updated 3 years ago
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆46Updated 4 years ago
• xfengnefx / hifiasm-meta
  hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.
  ☆67Updated 6 months ago
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆61Updated last year
• Psy-Fer / interARTIC
  InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..
  ☆31Updated last year
• Gabaldonlab / perSVade
  perSVade: personalized Structural Variation detection
  ☆39Updated 4 months ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆30Updated 2 months ago
• linsalrob / genbank_to
  Convert genbank files to a swath of other formats
  ☆18Updated last year
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆29Updated 11 months ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆37Updated 5 years ago