Alternatives and similar repositories for re-benchmarking

Users that are interested in re-benchmarking are comparing it to the libraries listed below

• mgtools / MinPath
  MinPath (Minimal set of Pathways) is a parsimony approach for biological pathway reconstructions using protein family predictions, achiev…
  ☆21Updated 3 years ago
• biobakery / shortbred
  ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then sear…
  ☆28Updated 3 months ago
• SegataLab / cmseq
  Set of utilities on sequences and BAM files
  ☆27Updated 3 years ago
• segalab / SGVFinder
  ☆32Updated last year
• zjshi / snv_analysis_almeida2019
  ☆22Updated 5 years ago
• YuLab-SMU / MicrobiomeProfiler
  A shiny package for microbiome functional enrichment analysis
  ☆37Updated 3 weeks ago
• deng-lab / viroprofiler
  A containerized bioinformatics pipeline for viral metagenomic data analysis
  ☆31Updated 9 months ago
• Ecogenomics / gtdb-species-clusters
  Toolkit for establishing, updating, and validating GTDB species clusters
  ☆20Updated last month
• ProwlerForNanopore / ProwlerTrimmer
  Trimming tool for Oxford Nanopore sequence data
  ☆21Updated 3 years ago
• SegataLab / metamlst
  MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.
  ☆15Updated 2 years ago
• Serka-M / Digester-MultiSequencing
  Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing
  ☆21Updated 2 years ago
• zifanzhu / MicroPro
  A microbial profiling framework for metagenomic analysis
  ☆24Updated 5 years ago
• smangul1 / MiCoP
  MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.
  ☆15Updated 3 years ago
• balabanmetin / uDance
  ☆43Updated last year
• Shenhav-and-Korem-labs / SCRuB
  ☆29Updated 4 months ago
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆18Updated 9 years ago
• KoslickiLab / YACHT-reproducibles
  A repo to reproduce the experiments in the YACHT manuscript
  ☆11Updated last year
• CAMI-challenge / OPAL
  OPAL: Open-community Profiling Assessment tooL
  ☆28Updated 4 months ago
• metasnv-tool / metaSNV
  MetaSNV, a metagenomic SNV calling pipeline.
  ☆20Updated 3 years ago
• ignasrum / hocort
  HoCoRT - Remove specific organisms from sequencing reads
  ☆17Updated 4 months ago
• R-Wright-1 / kraken_metaphlan_comparison
  R markdown documents copied from other folders on Dec 15th 2021
  ☆14Updated 2 years ago
• attayeb / snaq
  Qiime2 snakemake pipeline
  ☆17Updated last year
• ivlachos / agamemnon
  Accurate metagenomi/metatranscriptomic analysis pipeline
  ☆23Updated 3 years ago
• FEI38750 / MTD
  MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data
  ☆16Updated last year
• Finn-Lab / MGS-gut
  Analysing Metagenomic Species (MGS)
  ☆41Updated 4 years ago
• jkzorz / SituSeq
  workflows for offline analysis of 16S rRNA Nanopore data
  ☆13Updated last year
• EnvGen / metagenomics-workshop
  Metagenomics Workshop
  ☆28Updated 8 years ago
• marbl / MetaCompass
  MetaCompass: Reference-guided Assembly of Metagenomes
  ☆38Updated 4 years ago
• NBISweden / nbis-meta
  A snakemake workflow for metagenomic projects
  ☆14Updated 2 years ago
• biocore / greengenes2
  Processing support for Greengenes2
  ☆12Updated last year