Batch effects removal for microbiome data via conditional quantile regression
☆32Aug 23, 2022Updated 3 years ago
Alternatives and similar repositories for ConQuR
Users that are interested in ConQuR are comparing it to the libraries listed below
Sorting:
- Powerful and robust non-parametric association testing for microbiome data via a zero-inflated quantile approach☆12Mar 21, 2024Updated last year
- Software used to develop the TCMA database associated with 10.1016/j.chom.2020.12.001.☆14Nov 26, 2023Updated 2 years ago
- This is the supplementary code for CRC-multi-kingdom☆17Nov 8, 2021Updated 4 years ago
- gutSMASH☆58Oct 3, 2025Updated 5 months ago
- ☆63Feb 27, 2024Updated 2 years ago
- Development repository for R package 'PLSDAbatch ' hosted on Bioconductor.☆14Jan 6, 2026Updated 2 months ago
- MinPath (Minimal set of Pathways) is a parsimony approach for biological pathway reconstructions using protein family predictions, achiev…☆24Jun 9, 2021Updated 4 years ago
- ☆15Feb 3, 2023Updated 3 years ago
- ☆13Jun 6, 2024Updated last year
- ☆15Jun 26, 2025Updated 8 months ago
- A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.☆27Nov 21, 2018Updated 7 years ago
- ☆32Jun 12, 2023Updated 2 years ago
- Set of utilities on sequences and BAM files☆27Oct 27, 2021Updated 4 years ago
- ccfind - circular complete genome finder with clues of terminal redundancy☆16Feb 10, 2026Updated 3 weeks ago
- Microbe-Metabolite INteractions-based metabolic profiles Predictor☆16Mar 17, 2023Updated 2 years ago
- R package to predict microbial loads☆17Updated this week
- ☆19Dec 4, 2025Updated 3 months ago
- ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then sear…☆31Jan 24, 2025Updated last year
- MetaSNV, a metagenomic SNV calling pipeline.☆20Mar 25, 2022Updated 3 years ago
- ☆18Nov 19, 2022Updated 3 years ago
- Bioinformatics program inStrain☆181May 9, 2025Updated 9 months ago
- Predictive models and analysis of cancer prognosis and drug response using primary tumor microbial abundances derived from WGS and RNA-se…☆18Nov 13, 2024Updated last year
- ☆89Sep 3, 2024Updated last year
- Assessing the quality of metagenome-derived genome bins using machine learning☆251Mar 20, 2025Updated 11 months ago
- 🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs☆69Sep 26, 2024Updated last year
- Scalable creating/updating of metagenome profiling databases☆62Jun 25, 2025Updated 8 months ago
- Trans-Kingdom Marker Gene Pipeline for Taxonomic Profiling of Human Metagenomes☆23Nov 24, 2025Updated 3 months ago
- USDA Nutrition codes Tree☆11Feb 13, 2020Updated 6 years ago
- An R interface to the omixer-rpm for turning metagenomic functional profiles into pathway/module profiles☆12Dec 16, 2022Updated 3 years ago
- Microbial marker identification from cross-cohort datasets☆14May 15, 2024Updated last year
- ☆69Mar 10, 2024Updated last year
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆42Sep 3, 2024Updated last year
- ☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs☆37Oct 24, 2025Updated 4 months ago
- Deepurify is a tool to filter the contaminated contigs in a MAG with a language model.☆23Jun 3, 2025Updated 9 months ago
- Code and analysis results for the CRC shotgun meta-analysis☆38Sep 28, 2022Updated 3 years ago
- ☆11Jul 21, 2025Updated 7 months ago
- MaAsLin3: Microbiome Multivariate Association with Linear Models☆69Feb 23, 2026Updated last week
- High-resolution strain-level microbiome composition analysis tool based on reference genomes and k-mers☆43Apr 8, 2024Updated last year
- A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations☆44Apr 4, 2023Updated 2 years ago