husonlab / megan-ce

Related projects: ⓘ

• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆68Updated last year
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆54Updated 5 months ago
• hzi-bifo / traitar
  From genomes to phenotypes: Traitar, the microbial trait analyzer
  ☆56Updated 5 years ago
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆60Updated 5 months ago
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆68Updated 4 years ago
• patrickwest / EukRep
  Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets
  ☆69Updated 3 months ago
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆65Updated 6 months ago
• Sydney-Informatics-Hub / Shotgun-Metagenomics-Analysis
  Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more
  ☆26Updated last year
• karkman / MetagenomeCourse2019
  Course material for the metagenomics course
  ☆42Updated 2 years ago
• MadsAlbertsen / multi-metagenome
  Scripts and tutorials on how to assemble individual microbial genomes from metagenomes
  ☆80Updated 8 years ago
• bhattlab / kraken2_classification
  Snakemake workflow for metagenomic classification with Kraken2
  ☆66Updated last year
• ddarriba / modeltest
  Best-fit model selection
  ☆73Updated 6 months ago
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆46Updated 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…
  ☆47Updated 2 years ago
• treangenlab / emu
  ☆31Updated 2 weeks ago
• scwatts / fastspar
  Rapid and scalable correlation estimation for compositional data
  ☆72Updated 4 months ago
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆94Updated 3 years ago
• Mykrobe-tools / mykrobe
  Antibiotic resistance prediction in minutes
  ☆106Updated 3 months ago
• grimmlab / MicrobiomeBestPracticeReview
  Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
  ☆107Updated 4 months ago
• Zymo-Research / figaro
  An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters
  ☆78Updated 2 months ago
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆77Updated 10 months ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆54Updated 2 years ago
• rhysf / Synima
  Synteny Imager
  ☆60Updated 3 weeks ago
• snayfach / MicrobeCensus
  MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
  ☆42Updated 4 years ago
• nigyta / dfast_core
  DDBJ Fast Annotation and Submission Tool
  ☆76Updated 3 weeks ago
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆55Updated this week
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 3 years ago
• nick-youngblut / gtdb_to_taxdump
  Convert GTDB taxonomy to NCBI taxdump format
  ☆65Updated last year
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆105Updated 10 months ago
• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆62Updated 9 months ago