Bioinformatics

Fun Fact: What is so special about an odd k-mer length?

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Have you noticed that most assemblers use an odd k-mer length? Do you know why? Don’t you think it is odd? This blog post explains below …

Machine Learning

Painless Random Forest Regression in Python – Step-by-Step with Sklearn

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This tutorial demonstrates a step-by-step on how to use the Sklearn Python Random Forest package to create a regression model.

Python

Insights on a Plethora of Python IDEs and Code Editors

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Python is a powerful, easy to use, general-purpose programming language, loved by most programmers to develop web applications, data science, software prototypes, etc. Being a widely …

Bioinformatics

Estimate Genome Size and Best k-mer Size for Assembly – Step-by-Step

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This tutorial shows how you can estimate the genome size and the best k-mer length for genome assembly using KmerGenie. Moreover, the tutorial shows how to …

Bioinformatics

Reference-Free Metagenomic Datasets Comparison – Step-by-Step

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Reference-free metagenomic methods are very useful to compare datasets with high levels of unknown sequences. This tutorial teaches how this can be done going from metagenomic …

Python

Bloom Filter Made Simple: Theory and Code

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This tutorial simplifies Bloom Filter in Python by teaching what is a bloom filter, talks about its false positive and false negative rate, introduces some graphics …

Bioinformatics

Painless Prokaryote Pan Genome – Step-by-Step

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This tutorial shows how to annotate genomes in FASTA format and how to generate the pan-genome and core genome using the annotation. For annotating the genes, …

Bioinformatics

How to Simulate NGS reads – Step-by-Step

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This tutorial shows how to use a read simulator in Next-Generation Sequencing (NGS) sequence for single-cell genomes and metagenomics. It covers how to simulate Illumina (NovaSeq, …

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 …