2025

an archive of posts from this year

Dec 29, 2025 Extracting Full-Length 16S rRNA from Bacterial Genomes Using Barrnap
Dec 23, 2025 From Genome Assembly to Novel Species: A Step-by-Step Genomic Workflow
Dec 19, 2025 Using Syncthing, tmux, and Git to Sync My Bioinformatics Workflow Across Devices
Dec 18, 2025 Size-Fractionated Microbiome Analysis — Day 3: Species-Level Profiling with mOTUs
Dec 17, 2025 Genome Topology and Genome Announcement Reports: A Practical, Reviewer-Safe Workflow
Dec 16, 2025 Size Fractionated Microbiome Analysis — Day 2: Kaiju Classification and Extraction of Bacterial & Archaeal Reads
Dec 15, 2025 Size Fractionated Microbiome Anlaysis — Day 1: From Raw Reads to Clean Data
Dec 13, 2025 Amplicon Week — Day 6: Wrap-Up: From Reads to Insights
Dec 12, 2025 Amplicon Week — Day 5: Web-based microbiome analysis with easy16S
Dec 11, 2025 Amplicon Week — Day 4: Functional Prediction from Amplicon Data (PICRUSt2, Tax4Fun2, FAPROTAX)
Dec 10, 2025 Amplicon Week — Day 3: Visualization & Ecological Analysis Using QIIME2 + Microeco (R)
Dec 08, 2025 Amplicon Week — Day 2: QIIME2 Setup, Importing Data & Classifier Training
Dec 08, 2025 Amplicon Week — Day 1: Introduction to 16S, ITS, 18S, 12S, and COI Metabarcoding
Dec 05, 2025 Cleaning and Preparing Genomes for NCBI Submission — A Complete Workflow
Dec 05, 2025 Machine-learning MAG binning with SemiBin2 and Snakemake (soil metagenomes)
Dec 04, 2025 Installing & Setting Up My New Linux Laptop: A Real Journey Through Dual-Boot, Partitions & Persistence
Dec 03, 2025 GTDB-Tk Complete Workflow
Dec 02, 2025 Genome Assembly Day: Shovill for Illumina & Flye for Nanopore Reads
Dec 01, 2025 Visualizing Genome Assemblies with Bandage: Building from Source on Linux
Nov 18, 2025 Re-working Figure 5: Visualizing Functional Redundancy (FRed) Across Bays, Seasons, and Salinity
Nov 14, 2025 My Journey into Microbiology, the Deep Sea, and Bioinformatics