BradyAJohnston / plasmapRLinks
Creating plasmid maps inside ggplot.
☆88Updated 3 months ago
Alternatives and similar repositories for plasmapR
Users that are interested in plasmapR are comparing it to the libraries listed below
Sorting:
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆77Updated 4 months ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆54Updated 5 months ago
- An R package designed for drawing gene arrow maps☆92Updated 2 months ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆66Updated last year
- Genome wide orthology inference and dNdS estimation☆96Updated 3 months ago
- A microbiome analysis toolkit for R☆24Updated 2 years ago
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆72Updated 3 years ago
- ☆67Updated 9 years ago
- gutSMASH☆55Updated 2 months ago
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆49Updated last year
- MaAsLin3: Microbiome Multivariate Association with Linear Models☆49Updated 3 weeks ago
- Model-based Genomically Informed High-dimensional Predictor of Microbial Community Metabolic Profiles☆41Updated last year
- Metagenomics-related extended functionalities to samtools☆22Updated 2 years ago
- Speedy versions of phyloseq functions☆48Updated last year
- Compare different differential abundance and expression methods☆52Updated 3 years ago
- The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures☆15Updated 3 years ago
- SHallow shOtGUN profiler☆53Updated 3 years ago
- Programmatically interact with the GISAID database.☆79Updated 4 months ago
- Archive: R functions for Analysis of Composition of Microbiomes (ANCOM). Please check our ANCOMBC R package for the most up-to-date ANCOM…☆61Updated 3 years ago
- functions for analyzing phyloseq data☆28Updated 10 months ago
- BEAV: Bacterial Element Annotation reVamped☆72Updated 3 months ago
- Plot microbiome time series in parallel☆27Updated 2 years ago
- Semi-parametric Rank-Based Correlation and Partial Correlation Estimation for Quantitative Microbiome Data☆24Updated 3 years ago
- Simple R utilities for working with HMMER☆19Updated last year
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆39Updated 2 years ago
- Strain-level Metagenomic Estimation of Growth rate (SMEG) measures growth rates of microbial strains from complex metagenomic dataset☆19Updated 5 years ago
- Working with the outputs of sourmash in R☆28Updated 2 years ago
- Statistical analysis for sparse high-throughput sequencing☆71Updated 11 months ago
- The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacteria…☆45Updated last year
- Computational workflows for metagenomics tasks, by the Bhatt lab☆47Updated 2 years ago