Alternatives and similar repositories for pipelines

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

• EBI-Metagenomics / mettannotator
  ☆73Updated last week
• mdsufz / MuDoGeR
  MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.
  ☆88Updated 11 months ago
• franciscozorrilla / SymbNET
  Teaching materials for SymbNET course: from MAGs to GEMs
  ☆14Updated last year
• allind / EukDetect
  ☆52Updated last month
• EBI-Metagenomics / EukCC
  Tool to estimate genome quality of microbial eukaryotes
  ☆38Updated last week
• raw-lab / MetaCerberus
  Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…
  ☆59Updated 3 months ago
• robotoD / GenoVi
  GenoVi, an automated customizable circular genome visualizer for bacteria and archaea
  ☆96Updated 2 years ago
• patrickwest / EukRep_Pipeline
  ☆25Updated 6 years ago
• cmkobel / CompareM2
  🦠🧬🧑‍💻📇 Microbial genomes-to-report pipeline
  ☆59Updated this week
• Gibbons-Lab / medi
  Metagenomic Estimation of Dietary Intake and Content.
  ☆30Updated 3 months ago
• medema-group / BiG-MAP
  ☆31Updated last month
• ziyewang / COMEBin
  ☆55Updated last year
• jlw-ecoevo / gRodon2
  ☆44Updated last month
• AnantharamanLab / vRhyme
  Binning Virus Genomes from Metagenomes
  ☆66Updated 3 years ago
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆77Updated 2 years ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆61Updated last week
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆50Updated 6 months ago
• Gibbons-Lab / isb_course_2023
  Materials and presentation for the 2023 ISB Microbiome course.
  ☆24Updated 10 months ago
• linxingchen / cobra
  A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…
  ☆73Updated last month
• ziyewang / MetaBinner
  ☆56Updated last year
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆54Updated 5 years ago
• lauriebelch / SOCfinder
  ☆16Updated 2 months ago
• susiegriggo / Phynteny
  Predict the function of phage hypothetical proteins using an LSTM model trained with Phage Synteny
  ☆52Updated 2 months ago
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆66Updated 9 months ago
• voorloopnul / awesome-phages
  A curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.
  ☆50Updated 3 years ago
• kelwyres / Bactabolize
  ☆39Updated last month
• Matteopaluh / KEMET
  KEGG Module Evaluation Tool
  ☆30Updated last year
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆21Updated 2 years ago
• AnantharamanLab / ViWrap
  A wrapper to identify, bin, classify, and predict host-viral relationship for viruses
  ☆75Updated 7 months 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