Alternatives and similar repositories for bhattlab_workflows

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

• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆66Updated last year
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆60Updated last year
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆53Updated 3 years ago
• victoriapascal / gutsmash
  gutSMASH
  ☆55Updated 2 months ago
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆71Updated 11 months ago
• bhattlab / kraken2_classification
  Snakemake workflow for metagenomic classification with Kraken2
  ☆66Updated 2 years ago
• snayfach / IGGdb
  Database of genomes integrated from the gut microbiome and other environments
  ☆44Updated 2 years ago
• ohmeta / metapi
  A general metagenomics data mining system focus on robust microbiome research
  ☆58Updated last year
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆54Updated 5 months ago
• Finn-Lab / MGS-gut
  Analysing Metagenomic Species (MGS)
  ☆42Updated 5 years ago
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆80Updated 2 weeks ago
• widdowquinn / find_differential_primers
  Code for design of diagnostic PCR primers, and metabarcoding markers.
  ☆63Updated 2 years ago
• SegataLab / metamlst
  MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.
  ☆16Updated 2 years ago
• lozuponelab / SCNIC
  Sparse Cooccurence Network Investigation for Compositional data
  ☆25Updated last year
• CAMI-challenge / OPAL
  OPAL: Open-community Profiling Assessment tooL
  ☆29Updated 10 months ago
• replikation / poreCov
  SARS-CoV-2 workflow for nanopore sequence data
  ☆42Updated last week
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆86Updated 3 years ago
• bhattlab / phanta
  Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes
  ☆67Updated last week
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆55Updated 5 months ago
• leylabmpi / Struo2
  Scalable creating/updating of metagenome profiling databases
  ☆62Updated 5 months ago
• knights-lab / BURST
  An ultrafast optimal aligner for mapping large NGS data to large genome databases.
  ☆57Updated last year
• edamame-course / Metagenome
  ☆23Updated 7 years ago
• hzi-bifo / traitar
  From genomes to phenotypes: Traitar, the microbial trait analyzer
  ☆61Updated 6 years ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆60Updated last year
• ArifaKhanLab / RVDB
  A reference viral database (RVDB)
  ☆26Updated 7 years ago
• xiaoli-dong / metaerg
  ☆40Updated 4 years ago
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆70Updated last month
• merenlab / illumina-utils
  A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).
  ☆93Updated 2 weeks ago
• donia-lab / MetaBGC
  A metagenomic strategy for harnessing the chemical repertoire of the human microbiome
  ☆33Updated last month
• Shenhav-and-Korem-labs / SCRuB
  ☆32Updated 11 months ago