Alternatives and similar repositories for MiFish

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

• danknights / sourcetracker
  ☆79Updated 2 years ago
• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆72Updated 2 years ago
• mahsa-mousavi / eDNAFlow
  ☆21Updated 2 years ago
• simon-ho / SydneyPhyloWorkshop
  Sydney Phylogenetics Workshop
  ☆67Updated 5 months ago
• bokulich-lab / RESCRIPt
  REference Sequence annotation and CuRatIon Pipeline
  ☆98Updated last month
• caporaso-lab / sourcetracker2
  SourceTracker2
  ☆82Updated 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…
  ☆57Updated 3 years ago
• scwatts / fastspar
  Rapid and scalable correlation estimation for compositional data
  ☆96Updated last year
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆54Updated 6 months ago
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆80Updated 2 years ago
• karkman / MetagenomeCourse2019
  Course material for the metagenomics course
  ☆47Updated 3 years ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆60Updated last year
• treangenlab / emu
  ☆74Updated last week
• PacificBiosciences / HiFi-16S-workflow
  Nextflow pipeline to analyze PacBio HiFi full-length 16S data
  ☆88Updated 5 months ago
• pr2database / pr2database
  Protist Ribosomal Reference database (PR2) - SSU rRNA gene database
  ☆85Updated 3 weeks ago
• bhattlab / kraken2_classification
  Snakemake workflow for metagenomic classification with Kraken2
  ☆66Updated 2 years ago
• BioEasy / EasyCodeML
  EasyCodeML: A visual tool for analysis of selection using CodeML
  ☆83Updated 2 years ago
• zoecastillo / microbiomeExplorer
  The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…
  ☆72Updated 3 years ago
• mgoeker / table2itol
  Generating iToL annotations from Spreadsheet or CSV files
  ☆107Updated 5 years ago
• caitiecollins / treeWAS
  treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes
  ☆106Updated 10 months ago
• biobakery / MetaPhlAn2
  ☆34Updated 5 years ago
• xavierdidelot / BactDating
  Bayesian inference of ancestral dates on bacterial phylogenetic trees
  ☆93Updated 3 weeks ago
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆71Updated last year
• Finn-Lab / MAG_Snakemake_wf
  Recovery of prokaryotic genomes from shotgun metagenomic sequencing data
  ☆62Updated 4 years ago
• nmquijada / tormes
  Making whole bacterial genome sequencing data analysis easy
  ☆114Updated 8 months ago
• agmcfarland / r_phylogenetics_worshop
  Using ggtree to build phylogenetic trees
  ☆50Updated last year
• sherrillmix / taxonomizr
  Parse NCBI taxonomy and accessions to find taxonomic assignments
  ☆77Updated 5 months ago
• biofuture / Ublastx_stageone
  This is the source code for multisamples ARGs profiling using SARG2.0 database
  ☆46Updated 4 years ago
• SegataLab / lefse
  ☆86Updated last year
• grimmlab / MicrobiomeBestPracticeReview
  Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
  ☆122Updated last year