Alternatives and similar repositories for metadeconfoundR

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

• ablab / metaGT
  Pipeline for metagenome and metatranscriptome joint assembly
  ☆21Updated 2 years ago
• Shenhav-and-Korem-labs / SCRuB
  ☆32Updated 9 months ago
• 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
• blekhmanlab / biomehorizon
  Plot microbiome time series in parallel
  ☆27Updated last year
• snayfach / MicrobeCensus
  MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
  ☆45Updated 5 years ago
• ivlachos / agamemnon
  Accurate metagenomi/metatranscriptomic analysis pipeline
  ☆23Updated 4 years ago
• Gibbons-Lab / medi
  Metagenomic Estimation of Dietary Intake and Content.
  ☆33Updated 6 months ago
• SegataLab / cmseq
  Set of utilities on sequences and BAM files
  ☆26Updated 4 years ago
• wdl2459 / ConQuR
  Batch effects removal for microbiome data via conditional quantile regression
  ☆31Updated 3 years ago
• allind / EukDetect
  ☆54Updated 4 months ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆58Updated last year
• hoelzer / pocp
  Calculation of the Percentage of Conserved Proteins following Qin, Xie et al. 2014 but using DIAMOND instead of BLASTP for alignments.
  ☆27Updated 6 months ago
• qiime2 / q2-fragment-insertion
  ☆13Updated this week
• ziyewang / MetaBinner
  ☆59Updated last year
• Finn-Lab / MGS-gut
  Analysing Metagenomic Species (MGS)
  ☆42Updated 4 years ago
• biobakery / maaslin3
  MaAsLin3: Microbiome Multivariate Association with Linear Models
  ☆47Updated 3 weeks ago
• victoriapascal / gutsmash
  gutSMASH
  ☆55Updated 3 weeks ago
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆72Updated 5 years ago
• EBI-Metagenomics / EukCC
  Tool to estimate genome quality of microbial eukaryotes
  ☆38Updated 3 months ago
• GreyGuoweiChen / VirBot
  VirBot: a protein-based RNA virus detector for metagenomic data
  ☆34Updated last year
• YongxinLiu / Culturome
  ☆28Updated last year
• arumugamlab / msamtools
  Metagenomics-related extended functionalities to samtools
  ☆22Updated 2 years ago
• arumugamlab / MIntO
  Pipeline for Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data
  ☆15Updated last month
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆62Updated 2 years ago
• zjshi / snv_analysis_almeida2019
  ☆21Updated 5 years ago
• mdsufz / MuDoGeR
  MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.
  ☆87Updated last year
• elimoss / metagenomics_workflows
  Workflows for metagenomic sequence data processing and analysis.
  ☆16Updated 6 years ago
• benjjneb / LRASManuscript
  Reproducible Analyses accompanying DADA2 + PacBio Manuscript
  ☆32Updated 5 years ago
• gatech-genemark / MetaGeneMark-2
  MetaGeneMark-2: Improved Gene Prediction in Metagenomes
  ☆22Updated last year
• metaGmetapop / metapop
  A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations
  ☆43Updated 2 years ago