Alternatives and similar repositories for SCNIC

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

• snayfach / MicrobeCensus
  MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
  ☆47Updated 5 years ago
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆73Updated 5 years ago
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆62Updated 2 years ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆53Updated 3 years ago
• statdivlab / radEmu
  ☆60Updated this week
• MadsAlbertsen / mmgenome
  Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes
  ☆27Updated 8 years ago
• Gibbons-Lab / medi
  Metagenomic Estimation of Dietary Intake and Content.
  ☆35Updated 7 months ago
• hzi-bifo / traitar
  From genomes to phenotypes: Traitar, the microbial trait analyzer
  ☆61Updated 6 years ago
• biocore / songbird
  Vanilla regression methods for microbiome differential abundance analysis
  ☆60Updated 5 years ago
• aomlomics / tourmaline
  Amplicon sequence processing workflow using QIIME 2 and Snakemake
  ☆46Updated 3 weeks ago
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆54Updated 5 years ago
• xiaoli-dong / metaerg
  ☆40Updated 4 years ago
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆54Updated 5 months ago
• Microbial-Ecology-Group / AMRplusplus
  AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resis…
  ☆44Updated this week
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆70Updated 2 weeks ago
• EBI-Metagenomics / kegg-pathways-completeness-tool
  ☆28Updated 10 months ago
• leylabmpi / Struo
  Ley Lab MetaGenome Profiler DataBase generator
  ☆50Updated 3 years ago
• functional-dark-side / agnostos-wf
  ☆45Updated 2 years ago
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆22Updated 2 years ago
• biocore / DEICODE
  Robust Aitchison PCA from sparse count data
  ☆37Updated 3 years ago
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆66Updated last year
• jlw-ecoevo / gRodon
  ☆18Updated 3 years ago
• guyleonard / taxdump_edit
  Add new taxa or taxonomic groups to the NCBI Taxdump files
  ☆20Updated 5 years ago
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆72Updated 3 months ago
• AlexanderLabWHOI / EUKulele
  Automatic eukaryotic taxonomic classification
  ☆28Updated 7 months ago
• chrisquince / DESMAN
  De novo Extraction of Strains from MetAgeNomes
  ☆71Updated 5 years ago
• WatsonLab / KOunt
  Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.
  ☆25Updated last year
• SegataLab / panphlan
  PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
  ☆46Updated 2 years ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated last month
• 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