Alternatives and similar repositories for czid-web

Users that are interested in czid-web are comparing it to the libraries listed below

• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆56Updated 4 years ago
• bcgsc / arcs
  🌈Scaffold genome sequence assemblies using linked or long read sequencing data
  ☆95Updated 10 months ago
• iqbal-lab-org / gramtools
  Genome inference from a population reference graph
  ☆96Updated 5 months ago
• Phelimb / BIGSI
  BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data
  ☆125Updated 2 years ago
• NAL-i5K / GFF3toolkit
  Python programs for processing GFF3 files
  ☆99Updated last year
• ncbi / vadr
  Viral Annotation DefineR: classification and annotation of viral sequences based on RefSeq annotation
  ☆110Updated this week
• broadinstitute / viral-pipelines
  viral-ngs: complete pipelines
  ☆66Updated last month
• spacegraphcats / spacegraphcats
  Indexing & querying large assembly graphs -- in space, no one can hear you miao!
  ☆118Updated last year
• Mykrobe-tools / mykrobe
  Antibiotic resistance prediction in minutes
  ☆111Updated 9 months ago
• refresh-bio / kmer-db
  Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…
  ☆93Updated 4 months ago
• linsalrob / EdwardsLab
  Code from the Edwards lab, including bioinformatics, image analysis and more. All this code is created and maintained by folks at Rob Edw…
  ☆40Updated last month
• dzerbino / oases
  De novo transcriptome assembler for short reads
  ☆63Updated 7 years ago
• compbiocore / VariantVisualization.jl
  Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:
  ☆86Updated 2 years ago
• widdowquinn / find_differential_primers
  Code for design of diagnostic PCR primers, and metabarcoding markers.
  ☆62Updated last year
• snayfach / MIDAS
  An integrated pipeline for estimating strain-level genomic variation from metagenomic data
  ☆129Updated last year
• biocore / biom-format
  The Biological Observation Matrix (BIOM) Format Project
  ☆94Updated 3 weeks ago
• fls-bioinformatics-core / genomics
  Scripts, utilities and programs for genomic bioinformatics.
  ☆83Updated 3 weeks ago
• mourisl / Rcorrector
  Error correction for Illumina RNA-seq reads
  ☆67Updated last year
• sanger-pathogens / pathogen-informatics-training
  ☆74Updated 4 years ago
• SamStudio8 / reticulatus
  A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads
  ☆68Updated 3 years ago
• shenwei356 / kmcp
  Accurate metagenomic profiling && Fast large-scale sequence/genome searching
  ☆197Updated 2 years ago
• ncbi / ngs-tools
  ☆107Updated 2 weeks ago
• dib-lab / dammit
  just annotate it, dammit!
  ☆92Updated 2 years ago
• human-pangenomics / hpp_production_workflows
  WDL’s and Dockerfiles for assembly QC process
  ☆68Updated last month
• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆112Updated 6 years ago
• almiheenko / AGB
  Interactive visualization of assembly graphs
  ☆83Updated 3 years ago
• MikkelSchubert / adapterremoval
  AdapterRemoval v2 - rapid adapter trimming, identification, and read merging
  ☆113Updated this week
• sequana / sequana
  Sequana: a set of Snakemake NGS pipelines
  ☆146Updated last month
• nanoporetech / scrappie
  Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms group
  ☆93Updated 3 years ago
• NCBI-Hackathons / TheHumanPangenome
  A Strategy for Building and Using a Human Reference Pangenome
  ☆71Updated 5 years ago