Category: Bioinformatics

This webpage provides concise Bioinformatics tutorials that are helpful for both beginners and experienced learners. The tutorials cover fundamental concepts required for learning the topic, as well as advanced techniques. Specifically, the tutorials focus on Bioinformatics with Python, definitions, job roles, sequencing, metagenomic analysis, Samtools, and more.

Bioinformatics

Genome Assembly for Omics – Step-by-Step

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This tutorial will show step-by-step how to assembly single-cell Microbial genomes and metagenomic datasets. Here we will be using SPAdes to assemble the datasets and show …

Bioinformatics

Painless Metagenomic Contigs Binning – Step-by-Step

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This blog post teaches a step-by-step on binning metagenomic contigs using two unsupervised methods – CONCOCT and Metabat2. Furthermore, it uses a simulated metagenomic to evaluate …

Bioinformatics

Everything About the NCBI BLAST Aligner and Faster Alternatives

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This blog post talks about everything you need to know about BLAST (Basic Local Alignment Search Tool) NCBI. Here you will learn: How to run it …

Bioinformatics

Scaffolding Genome: Increase Draft Genome N50 Length – Step-by-Step

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This tutorial demonstrates how to increase a draft genome N50 by using Scaffold_Builder which takes pre-assembled genomes and a closely related reference genome.

Bioinformatics

1,000 Fold Speed up on Metagenomic Functional Profile

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Would you believe that you could estimate the functional profile for your metagenomic dataset 1,000 times faster than other tools out there? In this tutorial, I …

Bioinformatics

Finding Prophages in Bacterial Genomes – Step-by-Step

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This tutorial presents a step-by-step on finding prophages (phage) in bacterial genomes from a FASTA file (not Genbank format) to another FASTA with the (if any) …

Bioinformatics

Step by Step: Completeness and Contamination of MAGs

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This article demonstrates STEP by STEP checkm tutorial on how to estimate completeness and contamination of Metagenome Assembled Genomes (MAGs)

Bioinformatics

Bioconda: The Easiest Way to Install ANY Bioinformatics Tool

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How many times have you found an amazing bioinformatics tool but had trouble installing it into your personal computer/ server? This happened to me every week …

Bioinformatics

Metagenomic Taxonomic Profile in Seconds

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Would you believe if I tell you that you get a metagenomic taxonomic profile in seconds in your regular compute? If you don’t believe it, I …

Bioinformatics

The Easiest way to Calculate N50 for Genome Assembly

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This short tutorial demonstrates how you can use Python to compute N50 for Genome Assembly. What is N50? How to calculate N50 Is a larger n50 …