Calculate DNA Melting Temperature in Python – Step-by-Step
by: onestop_data
This tutorial shows how to calculate DNA melting temperature (Tm) in Python using Biopython which can be installed using bioconda.
Masking Low Complexity Regions – Step-by-Step
by: onestop_data
This short tutorial teaches how to mask low complexity regions in a FASTA file. This can be quickly accomplished by using bbmap which can download using …
Fast FASTA/FASTQ Random Subsampling
by: onestop_data
This short tutorial teaches how to subsample a paired FASTQ, single FASTQ, pair FASTA, or single FASTA file to a specific number of reads. This can …
Easy NCBI Genome Download
by: onestop_data
NCBI genome download can be a very unpleasant job. This page shows how to use ncbi-genome-download to easily download NCBI genomes with a single command line.
Fast Conversion of Lowercase Sequences to Uppercase in FASTA Format
by: onestop_data
This tutorial teaches two approaches to convert lowercase to uppercase sequences in FASTA format. In bioinformatics, a FASTA with lowercase bases implies that regions are low …
Quick Sequencing Depth and Coverage Check
by: onestop_data
This tutorial teaches how to run a quick sequencing depth and coverage check for one or more reference sequences.
The Fastest Way to Read a FASTA in Python
by: onestop_data
This tutorial teaches a fast approach on how to read sequences from large FASTA files in Python using Pysam.
Multiple Sequence Alignment – Theory and Practice – Step-by-Step
by: onestop_data
This blog post described Multiple Sequence Alignment (MSA) focusing on the theory and practice – Step-by-Step using MAFFT and Muscle.
The Easiest Way to Download Genomic Data from NCBI SRA, MG-RAST, etc
by: onestop_data
This tutorial will teach you how to download NGS data and metadata from repositories such as NCBI SRA, MG-RAST, Imicrobe, etc – very helpful to download …
Fun Fact: What is so special about an odd k-mer length?
by: onestop_data
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 …