Alternatives and similar repositories for RESCRIPt:

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

• tobiasgf / lulu
  r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)
  ☆63Updated last year
• pierrebarbera / epa-ng
  Massively parallel phylogenetic placement of genetic sequences
  ☆80Updated 2 years ago
• PacificBiosciences / HiFi-16S-workflow
  Nextflow pipeline to analyze PacBio HiFi full-length 16S data
  ☆66Updated 2 weeks ago
• scwatts / fastspar
  Rapid and scalable correlation estimation for compositional data
  ☆83Updated 8 months ago
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆73Updated last year
• benjjneb / decontam
  Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data
  ☆150Updated last year
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆81Updated last year
• MadsAlbertsen / multi-metagenome
  Scripts and tutorials on how to assemble individual microbial genomes from metagenomes
  ☆80Updated 8 years ago
• HCBravoLab / metagenomeSeq
  Statistical analysis for sparse high-throughput sequencing
  ☆69Updated last month
• MrOlm / inStrain
  Bioinformatics program inStrain
  ☆155Updated 8 months ago
• Zymo-Research / figaro
  An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters
  ☆83Updated 6 months ago
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆204Updated 2 weeks ago
• grimmlab / MicrobiomeBestPracticeReview
  Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing
  ☆112Updated 8 months ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆57Updated 9 months ago
• biobakery / biobakery_workflows
  bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validate…
  ☆106Updated 2 months ago
• DeniRibicic / q2ONT
  Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2
  ☆28Updated 4 years ago
• pr2database / pr2database
  Protist Ribosomal Reference database (PR2) - SSU rRNA gene database
  ☆79Updated last year
• MaestSi / MetONTIIME
  A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework
  ☆89Updated 7 months ago
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆99Updated 3 years ago
• Finn-Lab / MAG_Snakemake_wf
  Recovery of prokaryotic genomes from shotgun metagenomic sequencing data
  ☆57Updated 3 years ago
• snayfach / MGV
  Supporting code for uncultivated gut virus manuscript
  ☆68Updated last year
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆70Updated last year
• hzi-bifo / traitar
  From genomes to phenotypes: Traitar, the microbial trait analyzer
  ☆57Updated 5 years ago
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆69Updated last month
• moshi4 / COGclassifier
  A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category
  ☆59Updated 4 months ago
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆88Updated 3 months ago
• chklovski / CheckM2
  Assessing the quality of metagenome-derived genome bins using machine learning
  ☆189Updated 7 months ago
• ParkinsonLab / Metatranscriptome-Workshop
  Metatranscriptomics Tutorial
  ☆60Updated last year
• qichao1984 / NCyc
  ☆49Updated 4 years ago
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆114Updated last year