Sudarshan's Projects
R scripts for Analysis of Composition of Microbiomes (ANCOM).
Codes to reproduce figures from Atashgahi et al., XenobioticReview2018
bayesplot R package for plotting Bayesian models
Quality control and differential expression for bcbio RNA-seq experiments.
BEEM-static: An R package for inferring microbial interactions based on Lotka-Volterra models
rivm toolbox
Check your mock communities from microbiome sequencing experiments
Comparative bacterial community analysis in Celiac disease patients and control subjects.
Code accompanying the manuscript "Higher-order interactions stabilize dynamics in a competitive network model"
COVID-19 disease count cases in The Netherlands by RIVM, LCPS and NICE
a curated list of R tutorials for Data Science, NLP and Machine Learning
The Leek group guide to data sharing
Synthetic gut minimal microbiome with 10-core species
The dysbiosisR package implements tools for calculating some common microbiome dysbiosis measures
Infinite dimensional Dirichlet-multinomial mixtures for ecological count data
Fantaxtic plots for phyloseq objects!
Easy interactive dashboards for R
Testing different Ecolocical Network Interference tools on metatranscriptomic data
Inference of interaction networks from time series data fitting a generalized Lotka Volterra model
R scripts used for analysis of data reported in Comparison of Small Gut and Whole Gut Microbiota of First-Degree Relatives with Adult Patients with Celiac Disease and Controls
Data and analysis code for the Indian gut microbiota study
A jekyll theme for humans
Files and codes used for analysis of data reported in the review by Shetty et al. 2016.
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