Easy BAM Sort with samtools sort
This short tutorial demonstrates how samtools sort is used to sort BAM genomic coordinates. Moreover, how to pipe samtool sort when running bwa alignment, and how …
Pain-free Genome Depth Plotting
A genome depth plot is a great way to visualize how well a target genome is covered across the genome. This can be used to eyeball …
Remove Poor Reads in FASTQ/A
Have you needed to Clean your FASTA/FASTQ file? I know it is a common task. Back in the day, I found a Python 2 script to …
Get Read from a FASTA in One Line
Unfortunately, getting a read from a FASTA file can be challenging for large files if you try to open it in text edit. Have you generated …
Easy Convert BAM to FASTA
How many times have you wished to extract the sequences from a BAM file so you could convert the BAM to a FASTA file? This happened …
Reverse Complement one line script
Finding the reverse complement for DNA is a pretty common task in bioinformatics. Below is a simple Python implementation of how the task can be accomplished. …
Simple Script for Shannon Entropy
This tutorial presents a Python implementation of the Shannon Entropy algorithm to compute Entropy on a DNA/Protein sequence.
Easy Conversion FASTQ to FASTA
One of the most common tasks in bioinformatics data analysis is to convert a FASTQ file into FASTA. Unfortunately, some programs only accept input in FASTA …
Data Science Careers carving our professional paths
Data science (or part of any of the data science careers) applies statistical procedures ranging from data transformations, data modeling, statistical and machine learning modeling, and …