MG-RAST / pipeline

Related projects ⓘ

Alternatives and complementary repositories for pipeline

• CAMI-challenge / OPAL
  OPAL: Open-community Profiling Assessment tooL
  ☆27Updated 2 months ago
• nygenome / taxmaps
  Ultra-efficient taxonomic mapping of NGS data
  ☆51Updated 3 years ago
• dcdanko / MD2
  MicrobeDirectory 2.0
  ☆21Updated 4 years ago
• biocore / micronota
  annotation pipeline for microbial genomes and metagenomes
  ☆18Updated 6 years ago
• sanger-pathogens / mlst_check
  Multilocus sequence typing by blast using the schemes from PubMLST
  ☆30Updated 2 years ago
• alesssia / YAMP
  YAMP: Yet Another Metagenomic Pipeline
  ☆56Updated last year
• peterjc / picobio
  Miscellaneous Bioinformatics scripts etc mostly in Python
  ☆46Updated this week
• donia-lab / MetaBGC
  A metagenomic strategy for harnessing the chemical repertoire of the human microbiome
  ☆32Updated last year
• Yandell-Lab / taxonomer_0.5
  full taxonomer cython repository
  ☆22Updated 4 years ago
• TGAC / NanoOK
  Analysis tool for Nanopore sequencing data
  ☆33Updated 5 years ago
• borenstein-lab / fishtaco
  FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of mic…
  ☆23Updated 3 years ago
• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆54Updated 3 years ago
• grenaud / deML
  Maximum likelihood demultiplexing
  ☆46Updated last year
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆46Updated last year
• WGS-standards-and-analysis / datasets
  Benchmark datasets for WGS analysis
  ☆37Updated 5 years ago
• conchoecia / pauvre
  Pauvre: QC and genome browser plotting Oxford Nanopore and PacBio long reads.
  ☆52Updated last year
• pachterlab / metakallisto
  Using kallisto for metagenomic analysis
  ☆50Updated 7 years ago
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆60Updated 7 months ago
• mattloose / RUscripts
  Scripts for implementing read until and other examples.
  ☆31Updated 4 years ago
• sequencing / NxTrim
  Adapter trimming and virtual library creation for Illumina Nextera Mate Pair libraries.
  ☆54Updated 6 years ago
• nickloman / poredb
  ☆19Updated 7 years ago
• aziele / alfpy
  http://www.combio.pl/alfree
  ☆22Updated 2 years ago
• dib-lab / 2018-ncbi-lineages
  Extract lineage CSVs from NCBI for use with sourmash lca.
  ☆27Updated last year
• nh13 / snakeparse
  Making Snakemake workflows into full-fledged command line tools since 1999.
  ☆51Updated 6 years ago
• sanger-pathogens / gff3toembl
  Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
  ☆29Updated 5 years ago
• dkoslicki / MetaPalette
  Metagenomic profiling and phylogenetic distances via common kmers
  ☆42Updated 3 years ago
• ukhsa-collaboration / PHEnix
  Public Health England SNP calling pipeline.
  ☆36Updated 6 years ago
• cboursnell / transfuse
  Merge transcriptome assemblies
  ☆30Updated 8 years ago
• sestaton / Transposome
  A toolkit for annotation of transposable element families from unassembled sequence reads
  ☆31Updated last year
• gregpoore / tcga_rebuttal
  Re-analysis of data provided by Gihawi et al. 2023 bioRxiv
  ☆25Updated last year