Alternatives and similar repositories for BIGSI

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

• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆113Updated 6 years ago
• LomanLab / mockcommunity
  Long-read mock community experiments
  ☆106Updated 3 years ago
• nanoporetech / ont-assembly-polish
  ONT assembly and Illumina polishing pipeline
  ☆89Updated 4 years ago
• nanoporetech / qcat
  qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.
  ☆81Updated 4 years ago
• snayfach / MIDAS
  An integrated pipeline for estimating strain-level genomic variation from metagenomic data
  ☆130Updated last year
• chiulab / surpi
  SURPI
  ☆85Updated 9 years ago
• SorenKarst / longread_umi
  ☆78Updated 4 years 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…
  ☆92Updated 3 months ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆107Updated 3 years ago
• glennhickey / progressiveCactus
  Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
  ☆86Updated 7 years ago
• DiltheyLab / MetaMaps
  Long-read metagenomic analysis
  ☆104Updated last year
• bcgsc / arcs
  🌈Scaffold genome sequence assemblies using linked or long read sequencing data
  ☆96Updated 9 months ago
• rrwick / Metagenomics-Index-Correction
  ☆84Updated last year
• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆56Updated 4 years ago
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆141Updated last year
• mw55309 / Kraken_db_install_scripts
  Updated Kraken DB install scripts to cope with new-ish NCBI structure
  ☆47Updated 8 years ago
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆126Updated 4 years ago
• fbreitwieser / bamcov
  Quickly calculate and visualize sequence coverage in alignment files
  ☆99Updated 6 years ago
• mitenjain / nanopore
  UCSC Nanopore group's software pipeline for reference-based sequence analysis
  ☆55Updated 9 years ago
• fhcrc / seqmagick
  An imagemagick-like frontend to Biopython SeqIO
  ☆116Updated last year
• cbg-ethz / shorah
  Repo for the software suite ShoRAH (Short Reads Assembly into Haplotypes)
  ☆41Updated 2 years ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆77Updated last year
• JustinChu / JupiterPlot
  A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.
  ☆85Updated 9 months ago
• Mykrobe-tools / mykrobe
  Antibiotic resistance prediction in minutes
  ☆111Updated 9 months ago
• mw55309 / EG_MinION_2016
  Edinburgh Genomics MinION training 2016
  ☆33Updated 8 years ago
• guyduche / Blast2Bam
  Blast2Bam uses the XML results of Blastn, the reference and the fastQ or fasta file(s) to output a SAM file.
  ☆49Updated 4 years ago
• nanoporetech / read_until_api
  Read Until client library for Nanopore Sequencing
  ☆104Updated 11 months ago
• rrwick / Minipolish
  A tool for Racon polishing of miniasm assemblies
  ☆77Updated 3 months ago
• nanoporetech / scrappie
  Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms group
  ☆93Updated 3 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago