Alternatives and similar repositories for bhattlab_workflows

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

• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆53Updated 3 years ago
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆60Updated last year
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆69Updated 9 months ago
• bhattlab / kraken2_classification
  Snakemake workflow for metagenomic classification with Kraken2
  ☆65Updated 2 years ago
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆64Updated last year
• snayfach / IGGdb
  Database of genomes integrated from the gut microbiome and other environments
  ☆44Updated 2 years ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆54Updated 3 months ago
• victoriapascal / gutsmash
  gutSMASH
  ☆55Updated last week
• 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.
  ☆53Updated 3 months ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆58Updated last year
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆78Updated 3 weeks ago
• edamame-course / Metagenome
  ☆23Updated 7 years ago
• xiaoli-dong / metaerg
  ☆40Updated 4 years ago
• hzi-bifo / traitar
  From genomes to phenotypes: Traitar, the microbial trait analyzer
  ☆61Updated 6 years ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 4 years ago
• knights-lab / BURST
  An ultrafast optimal aligner for mapping large NGS data to large genome databases.
  ☆57Updated last year
• smdabdoub / kraken-biom
  Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…
  ☆55Updated 3 years ago
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆85Updated 2 years ago
• leylabmpi / Struo2
  Scalable creating/updating of metagenome profiling databases
  ☆62Updated 3 months ago
• calacademy-research / minibar
  Dual barcode and primer demultiplexing for MinION sequenced reads
  ☆41Updated 2 years ago
• cssmillie / StrainFinder
  StrainFinder
  ☆27Updated 7 years ago
• SegataLab / metamlst
  MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.
  ☆16Updated 2 years ago
• emepyc / Blast2lca
  Calculates the lowest common ancestors of each query sequence in a Blast result
  ☆31Updated 7 years ago
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆72Updated 5 years ago
• Finn-Lab / MGS-gut
  Analysing Metagenomic Species (MGS)
  ☆41Updated 4 years ago
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆77Updated 2 months ago
• EnvGen / metagenomics-workshop
  Metagenomics Workshop
  ☆28Updated 8 years ago
• donia-lab / MetaBGC
  A metagenomic strategy for harnessing the chemical repertoire of the human microbiome
  ☆33Updated 3 months ago
• merenlab / illumina-utils
  A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).
  ☆92Updated last year