Alternatives and similar repositories for sc2-illumina-pipeline:

Users that are interested in sc2-illumina-pipeline are comparing it to the libraries listed below

• theiagen / public_health_bacterial_genomics
  ☆27Updated last year
• CAMI-challenge / OPAL
  OPAL: Open-community Profiling Assessment tooL
  ☆27Updated this week
• Psy-Fer / interARTIC
  InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..
  ☆30Updated last year
• Serka-M / Digester-MultiSequencing
  Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing
  ☆21Updated last year
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆19Updated 8 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆28Updated 6 months ago
• B-UMMI / long-read-catalog
  catalog for long-read sequencing tools
  ☆32Updated last year
• sanger-pathogens / seroba
  k-mer based Pipeline to identify the Serotype from Illumina NGS reads
  ☆21Updated last year
• jonas-fuchs / varVAMP
  Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
  ☆34Updated 4 months ago
• JordyCoolen / easyseq_covid19
  Pipeline to automatically analyse SARS-CoV-2 Whole genome sequencing Illumina data obtained using EasySeq SARS-CoV-2/COVID-19 Whole Geno…
  ☆15Updated 2 years ago
• ProwlerForNanopore / ProwlerTrimmer
  Trimming tool for Oxford Nanopore sequence data
  ☆22Updated 3 years ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆29Updated last week
• fmalmeida / ngs-preprocess
  A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies
  ☆31Updated 6 months ago
• citiususc / BigSeqKit
  BigSeqKit: a parallel Big Data toolkit to process FASTA and FASTQ files at scale
  ☆56Updated last year
• cpockrandt / PhyloCSFpp
  PhyloCSF++ computes PhyloCSF tracks for whole-genome multiple sequence alignments, scores single MSA, annotates CDS features in GFF/GTF f…
  ☆30Updated 2 years ago
• jonas-fuchs / BAMdash
  create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks
  ☆43Updated 5 months ago
• rpetit3 / fastq-scan
  Output FASTQ summary statistics in JSON format
  ☆29Updated 2 years ago
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆23Updated last week
• wdecoster / nanolyse
  Remove lambda phage reads from a fastq file
  ☆28Updated 2 years ago
• marbl / MetaCompass
  MetaCompass: Reference-guided Assembly of Metagenomes
  ☆38Updated 3 years ago
• replikation / poreCov
  SARS-CoV-2 workflow for nanopore sequence data
  ☆40Updated this week
• nanoporetech / pipeline-umi-amplicon
  Workflow to prepare high accuracy single molecule consensus sequences from amplicon data using unique molecular identifiers
  ☆33Updated 10 months ago
• bioinfo-ut / PhenotypeSeeker
  Identify phenotype-specific k-mers and predict phenotype using sequenced bacterial strains
  ☆19Updated 2 months ago
• angelovangel / nxf-kraken2
  A simple nextflow pipeline for running kraken2 and bracken in a docker container
  ☆20Updated 3 years ago
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆29Updated last year
• CFIA-NCFAD / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆18Updated last week
• elimoss / metagenomics_workflows
  Workflows for metagenomic sequence data processing and analysis.
  ☆17Updated 5 years ago
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated 2 months ago
• rega-cev / virulign
  VIRULIGN: fast codon-correct alignment and annotation of viral genomes
  ☆31Updated 3 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆43Updated 4 years ago