Alternatives and similar repositories for pipelines

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

• EBI-Metagenomics / mettannotator
  ☆81Updated 2 months ago
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆81Updated 2 years ago
• Gibbons-Lab / isb_course_2023
  Materials and presentation for the 2023 ISB Microbiome course.
  ☆24Updated last year
• raw-lab / MetaCerberus
  Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…
  ☆65Updated last month
• mdsufz / MuDoGeR
  MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.
  ☆89Updated last year
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆22Updated 2 years ago
• EBI-Metagenomics / EukCC
  Tool to estimate genome quality of microbial eukaryotes
  ☆38Updated 6 months ago
• linsalrob / PhiSpy
  Prediction of prophages from bacterial genomes
  ☆81Updated last week
• robotoD / GenoVi
  GenoVi, an automated customizable circular genome visualizer for bacteria and archaea
  ☆102Updated 2 years ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆71Updated last month
• AnantharamanLab / vRhyme
  Binning Virus Genomes from Metagenomes
  ☆70Updated 3 years ago
• BigDataBiology / argNorm
  ARG normalization by mapping to the ARO ontology.
  ☆62Updated 6 months ago
• biobakery / maaslin3
  MaAsLin3: Microbiome Multivariate Association with Linear Models
  ☆67Updated last week
• linxingchen / cobra
  A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…
  ☆82Updated 5 months ago
• AnantharamanLab / ViWrap
  A wrapper to identify, bin, classify, and predict host-viral relationship for viruses
  ☆86Updated last year
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆54Updated 5 years ago
• kelwyres / Bactabolize
  ☆43Updated 7 months ago
• ziyewang / COMEBin
  ☆66Updated last year
• XiaofangJ / PhaseFinder
  A pipeline to computationally identify invertible DNA regions and quantify their orientations.
  ☆32Updated 2 years ago
• allind / EukDetect
  ☆56Updated last week
• susiegriggo / Phynteny
  Predict the function of phage hypothetical proteins using an LSTM model trained with Phage Synteny
  ☆58Updated 8 months ago
• jlw-ecoevo / gRodon
  ☆18Updated 3 years ago
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆73Updated 5 months ago
• Carrion-lab / bacLIFE
  ☆50Updated 2 weeks ago
• jlw-ecoevo / gRodon2
  ☆50Updated last month
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆73Updated 6 years ago
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆88Updated 2 years ago
• Matteopaluh / KEMET
  KEGG Module Evaluation Tool
  ☆32Updated 2 years ago
• ibe-uw / tiara
  tiara – a tool for DNA sequence classification
  ☆74Updated last year
• patrickwest / EukRep_Pipeline
  ☆24Updated 7 years ago