Rajal Debnath's Projects
Notes and scripts for 16S microbiome analysis
16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo/
Course Page for 1 day Data Carpentry @ MSU
basic walk-throughs for alignment and variant calling from NGS sequencing data
An Automated Phylogenomic Inference Pipeline for Bacterial and Archaeal Sequences.
R scripts for Analysis of Composition of Microbiomes (ANCOM).
Animation addon tool for phyloseq package
annovarR: a variant annotation and visualization system based on R and Shiny framework
An analysis and visualization platform for 'omics data
Applied Computational Genomics Course at UU: Spring 2018
Materials for Spring 2018 Applied Genomics Course
A list of interesting genome browser or genome-browser-like implementations
An awesome list of high-quality open datasets in public domains (on-going). By everyone, for everyone!
Collection of scripts for bacterial genomics
Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
a Bioinformatics Application for Navigating De novo Assembly Graphs Easily
A collection of handy Bash One-Liners and terminal tricks for data processing and Linux system maintenance.
Incubator for useful bioinformatics code, primarily in Python and R
A powerful toolset for genome arithmetic.
Handy scripts for routine bioinformatic analysis
Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation
Some useful python scripts for biologists
A library of free open source icons for science illustrations in biology and chemistry
Development version of the biom package for R
Useful tools in microbiomics and metagenomics
some useful scripts for working with genomics and sequencing data
Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
BRIG is a cross-platform (Windows/Mac/Unix) application that can display circular comparisons between a large number of genomes, with a focus on handling genome assembly data.
self made scripts