Alternatives and similar repositories for american-gut-analyses

Users that are interested in american-gut-analyses are comparing it to the libraries listed below

• BaderLab / AgingMouseBrainCCInx

  View on GitHub
  Predicted cell-cell interactions of the aging mouse brain
  ☆20Sep 24, 2019Updated 6 years ago
• shihuang047 / age-prediction

  View on GitHub
  ☆22Nov 6, 2020Updated 5 years ago
• prafols / rMSIproc

  View on GitHub
  rMSI processing methods using C++
  ☆11Dec 3, 2021Updated 4 years ago
• audy / miseq-16S-pipeline

  View on GitHub
  HPC pipeline for overlapping V4 16S rRNA reads generated on Illumina MiSeq
  ☆11Sep 1, 2015Updated 10 years ago
• raeslab / QMP

  View on GitHub
  Quantitative Microbiome Profiling
  ☆15Mar 13, 2021Updated 4 years ago
• jwdebelius / q2-sidle

  View on GitHub
  A QIIME 2 implementation of SMURF
  ☆13Apr 27, 2022Updated 3 years ago
• LeeBergstrand / Genbank-Downloaders

  View on GitHub
  A series of small Biopython scripts for downloading sequence data off NCBI's Genbank.
  ☆15May 2, 2017Updated 8 years ago
• raeslab / GMMs

  View on GitHub
  A manually curated database of human gut metabolic modules.
  ☆17Jul 27, 2018Updated 7 years ago
• ashleymaeconard / TIMEOR

  View on GitHub
  TIMEOR: Trajectory Inference and Mechanism Exploration with Omics Data in R
  ☆17Feb 22, 2022Updated 3 years ago
• biocore / American-Gut

  View on GitHub
  American Gut open-access data and IPython notebooks
  ☆126Mar 17, 2017Updated 8 years ago
• jzsh2000 / seurat-shiny

  View on GitHub
  ☆19Jul 6, 2023Updated 2 years ago
• knights-lab / shi7

  View on GitHub
  Auto-parameterizing QC Pipeline for Illumina sequencing runs
  ☆17Jul 9, 2024Updated last year
• jinghuazhao / INF

  View on GitHub
  SCALLOP-INF analysis
  ☆20Oct 24, 2025Updated 3 months ago
• qsu123 / multi_class_diagnosis

  View on GitHub
  ☆18Nov 19, 2022Updated 3 years ago
• biocore / Platypus-Conquistador

  View on GitHub
  Confirming specific taxonomic groups within your samples.
  ☆19Dec 21, 2020Updated 5 years ago
• snayfach / IGGdb

  View on GitHub
  Database of genomes integrated from the gut microbiome and other environments
  ☆45Feb 3, 2023Updated 3 years ago
• inodb / 2014-5-metagenomics-workshop

  View on GitHub
  Metagenomics Workshop 2014-5-21 to 2014-5-23 at SciLifeLab, Stockholm
  ☆18May 23, 2014Updated 11 years ago
• chloelulu / scMayoMap

  View on GitHub
  ☆25Oct 25, 2023Updated 2 years ago
• metagenome-atlas / Tutorial

  View on GitHub
  A tutorial for Metagenome-Atlas
  ☆23Nov 24, 2023Updated 2 years ago
• Tong-Chen / notebook

  View on GitHub
  ☆22May 17, 2017Updated 8 years ago
• knightlab-analyses / reference-frames

  View on GitHub
  ☆20Jun 8, 2020Updated 5 years ago
• mruffalo / sc-rna-seq-pipeline

  View on GitHub
  ☆22Nov 11, 2019Updated 6 years ago
• wgmao / PLIER

  View on GitHub
  Pathway-Level Information Extractor (PLIER): a generative model for gene expression data
  ☆54Aug 30, 2024Updated last year
• lileir / mms2plot

  View on GitHub
  Visualization of multiple tandem mass spectrometry data
  ☆10Jun 15, 2020Updated 5 years ago
• rrwick / Fast5-to-Fastq

  View on GitHub
  A simple tool for extracting reads from Oxford Nanopore fast5 files
  ☆26Sep 4, 2017Updated 8 years ago
• Shenhav-and-Korem-labs / SCRuB

  View on GitHub
  ☆32Jan 4, 2025Updated last year
• twbattaglia / koeken

  View on GitHub
  A Linear Discriminant Analysis Effect Size (LEfSe) wrapper.
  ☆26Feb 2, 2017Updated 9 years ago
• raeslab / omixer-rpm

  View on GitHub
  A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.
  ☆27Nov 21, 2018Updated 7 years ago
• segalab / SGVFinder

  View on GitHub
  ☆32Jun 12, 2023Updated 2 years ago
• HCBravoLab / metagenomeSeq

  View on GitHub
  Statistical analysis for sparse high-throughput sequencing
  ☆71Dec 17, 2024Updated last year
• Xinglab / lr2rmats

  View on GitHub
  Long read to rMATS
  ☆32May 5, 2023Updated 2 years ago
• snewhouse / awesome-genetics-software

  View on GitHub
  A list of cool software for genetic analysis and the like
  ☆12Sep 21, 2018Updated 7 years ago
• bm2-lab / DeepCRISPR

  View on GitHub
  ☆72Feb 13, 2023Updated 3 years ago
• ravel-lab / speciateIT

  View on GitHub
  Fast, accurate taxonomic assignments for the human vaginal microbiota
  ☆11Updated this week
• yuvallb / CaSTLe

  View on GitHub
  Classification of Single cells by Transfer Learning
  ☆10Oct 11, 2025Updated 4 months ago
• linnarsson-lab / pysmFISH

  View on GitHub
  Analysis of smFISH data
  ☆12Aug 27, 2018Updated 7 years ago
• vincenthahaut / FLASH-Seq

  View on GitHub
  ☆10May 31, 2022Updated 3 years ago
• CHRF-Genomics / Paratype

  View on GitHub
  Assign genotypes to Salmonella Paratyphi A isolates using their whole-genome data.
  ☆10Mar 6, 2025Updated 11 months ago
• olarerin / metaPlotR

  View on GitHub
  A Perl/R pipeline for plotting metagenes
  ☆37Sep 17, 2021Updated 4 years ago