Alternatives and similar repositories for pipelines

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

• franciscozorrilla / SymbNET
  Teaching materials for SymbNET course: from MAGs to GEMs
  ☆14Updated last year
• Matteopaluh / KEMET
  KEGG Module Evaluation Tool
  ☆29Updated last year
• EBI-Metagenomics / EukCC
  Tool to estimate genome quality of microbial eukaryotes
  ☆37Updated 4 months ago
• zreitz / multismash
  A workflow and scripts for large-scale antiSMASH analyses
  ☆41Updated 2 months ago
• EBI-Metagenomics / mettannotator
  ☆71Updated last month
• allind / EukDetect
  ☆50Updated last year
• lauriebelch / SOCfinder
  ☆16Updated 3 weeks ago
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆52Updated 5 years ago
• ohlab / GRiD
  Growth Rate Index (GRiD) measures bacterial growth rate from reference genomes (including draft quality genomes) and metagenomic bins at …
  ☆32Updated 5 years ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆59Updated last week
• Kalan-Lab / lsaBGC
  lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters
  ☆37Updated last month
• metagenopolis / CroCoDeEL
  CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data
  ☆24Updated 2 weeks ago
• cjneely10 / MetaSanity
  Pipeline for major biological analyses.
  ☆35Updated 3 years ago
• AnantharamanLab / PropagAtE
  Prophage Activity Estimator
  ☆26Updated last year
• Gibbons-Lab / medi
  Metagenomic Estimation of Dietary Intake and Content.
  ☆30Updated last month
• michaelkyu / PlasX
  PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture
  ☆34Updated 3 years ago
• patrickwest / EukRep_Pipeline
  ☆24Updated 6 years ago
• CCB-SB / plsdb
  PLSDB pipeline to collect bacterial plasmids from NCBI
  ☆38Updated 7 months ago
• brinkmanlab / islandpath
  IslandPath standalone software
  ☆32Updated last year
• endixk / ezaai
  EzAAI - High Throughput Prokaryotic AAI Calculator
  ☆41Updated 7 months ago
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆21Updated last year
• EBI-Metagenomics / genome_uploader
  Python script to upload bins and MAGs to ENA (European Nucleotide Archive)
  ☆24Updated last month
• functional-dark-side / agnostos-wf
  ☆45Updated last year
• ziyewang / COMEBin
  ☆53Updated last year
• Gibbons-Lab / isb_course_2023
  Materials and presentation for the 2023 ISB Microbiome course.
  ☆24Updated 8 months ago
• ablab / metaGT
  Pipeline for metagenome and metatranscriptome joint assembly
  ☆21Updated 2 years ago
• xthua / bacant
  This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.
  ☆21Updated 2 years ago
• arumugamlab / MIntO
  Pipeline for Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data
  ☆14Updated 3 months ago
• RasmussenLab / phamb
  Downstream processing of VAMB binning for Viral Elucidation
  ☆50Updated 11 months ago
• medema-group / BiG-MAP
  ☆30Updated 2 months ago