bioinformatics-projects

Here, I am sharing scripts and methods I used for some of the Bioinformatics projects.

Table of Contents

1. Project 1 - 16s Microbiome Data Analysis Qiime 1
1. Loading Qiime meta data to Phyloseq library
2. Prevalence filtering
3. Filtering and Normalization
1. TSS: Total-Sum Scaling
2. Rarefying
3. CSS: Cumulative-Sum Scaling
4. Abundance Plot
1. Violine plots and Bargraphs
5. MetagenomeSeq
1. CSS Normalized Viloline plot and Bargraphs
2. Presence-absence testing
3. Unique OTUs or features
4. HeatMaps and PCA plots
2. Project 2 - In Silico Restriction Enzyme Digestion
3. Project 3 - Random GGplots
4. Project 4 - Microbiome Data Analysis Qiime 2