rajaldebnath
Microbial ecology | Microbiology | Bioinformatics https://scholar.google.com/citations?user=hiB40poAAAAJ&hl=en
Central Silk BoardIndia
Pinned Repositories
16S
Notes and scripts for 16S microbiome analysis
16S-rDNA-V3-V4
16S rDNA V3-V4 amplicon sequencing analysis using dada2, phyloseq, LEfSe, picrust2 and other tools. Demo: https://ycl6.github.io/16S-Demo/
2016-01-18-MSU
Course Page for 1 day Data Carpentry @ MSU
2017-ncbi-taxdump
alignment-and-variant-calling-tutorial
basic walk-throughs for alignment and variant calling from NGS sequencing data
AMPHORA2
An Automated Phylogenomic Inference Pipeline for Bacterial and Archaeal Sequences.
ANCOM
R scripts for Analysis of Composition of Microbiomes (ANCOM).
co-occurrence
R scripts for performing co-occurrence analyses
pyani
Application and Python module for average nucleotide identity analyses of microbes.
RNASeq_Trinity_Tuxedo_Workshop
materials for the RNA-Seq workshop on Trinity and Tuxedo, covering de novo and genome-guided transcript assembly and downstream analysis.
rajaldebnath's Repositories
rajaldebnath/applied-computational-genomics
Applied Computational Genomics Course at UU: Spring 2018
rajaldebnath/appliedgenomics2018
Materials for Spring 2018 Applied Genomics Course
rajaldebnath/Bandage
a Bioinformatics Application for Navigating De novo Assembly Graphs Easily
rajaldebnath/BINF_toolkit
Handy scripts for routine bioinformatic analysis
rajaldebnath/C-score_analysis
rajaldebnath/Circleator
Flexible circular visualization of genome-associated data with BioPerl and SVG.
rajaldebnath/Co-occurrence_Network_Analysis
R and python scripts for correlation-based network analysis
rajaldebnath/Comparative_Genomics
Micro 612 genomics workshop - Microbial Genomics Workshop
rajaldebnath/cytofkit
cytofkit: an integrated flow/mass cytometry data analysis pipeline
rajaldebnath/dataviz
A book covering the fundamentals of data visualization.
rajaldebnath/mctoolsr
Microbial community analysis tools in R
rajaldebnath/meta_arsenic
rajaldebnath/MicrobialGenomicsScripts
A selection of short scripts for analyzing microbial genomes
rajaldebnath/micropan
:exclamation: This is a read-only mirror of the CRAN R package repository. micropan — Microbial Pan-Genome Analysis
rajaldebnath/nanopore
rajaldebnath/ncbi-genome-download
Scripts to download genomes from the NCBI FTP servers
rajaldebnath/OpenBugFarm
We're building the world's first Open Source Bug Farm Kit.
rajaldebnath/pan-genome-analysis
Processing pipeline for pan-genome visulization and exploration
rajaldebnath/pan-genome-visualization
rajaldebnath/PanVizGenerator
Create your own PanViz visualizations
rajaldebnath/PAPER_Chodkowski_mSystems_2017
Computing workflows for processing non-targeted mass spectral data for Chodkowski and Shade, mSystems
rajaldebnath/phyloseq-extended
Various customs functions written to enhance the base functions of phyloseq. Most of them are used in the formation "Métagénomique 16S" provided by the platforms Migale and Genotoul
rajaldebnath/plotMyGBK
rajaldebnath/Prodigal
Prodigal Gene Prediction Software
rajaldebnath/prokka
:zap: :aquarius: Rapid prokaryotic genome annotation
rajaldebnath/qiime2
Official repository for the QIIME 2 framework.
rajaldebnath/seq2mlst
In silico multi-locus sequence typing (MLST) for bacterial genomes
rajaldebnath/shiny-phyloseq
An interactive web application for demonstrating and using phyloseq.
rajaldebnath/Tools-Microbiome-Analysis
A list of R environment based tools for marker gene microbiome data exploration, statistical analysis and visualization
rajaldebnath/vcftools
A set of tools written in Perl and C++ for working with VCF files, such as those generated by the 1000 Genomes Project.