How to use Prokka for rapid prokaryotic features annotation

How to use Prokka for rapid prokaryotic features annotationProkka is one of useful software tools package that use for annotating bacterial, archaeal and viral genomes feature data both automatically and manually.This tools use Perl for processing data and it only uses core Perl modules. but has quite a few external tool dependencies, some of which …

How to use UNIX codes for paste with NGS Sequences Data

UNIX shell and command lines are very good tools for using in computational process during bioinformatics and one of useful command line in shell for solving paste problem in NGS data is this command line help us using Paste command as a solution: This command is very useful with simple structure and clearly its potential …

Methods for cleaning illumina FASTQ reads data with NESONI clip tool:

IntroductionCleaning FASTQ reads data query is one of issues usually bioinformaticians faces and it is the process of removing those bits of the reads that you don’t deem good enough to be given to the next stage of your pipeline for post process and getting result.. At worst, this could mean removing the whole read, …

Method for Sorting FASTQ files by sequence length using unix tools

The FASTQ file format which are used for reading and transferring sequences data is used to store short sequence reads, most commonly those from Illumina. The reads are typically between 36 and 250 bp long, and typical data sets contain between 1M to 1B reads. Each entry in a FASTQ file contains three pieces of …

Methods & Tools to merge overlapping paired-end Sequences reads

IntroductionOne of important issues faced in bioinformatics is to optimize data for post processes and current sequencing technology begins by breaking up long pieces of DNA into lots more short pieces of DNA. The resultant set of DNA is called a “library” and the short pieces are called “fragments”. Each of the fragments in the …

Unix tools commands for Counting Sequences

Unix as a comfortable and useful tools in bioinformatics uses basic commands to do processes in bioinformatics and immunoinformatics. Every command line computational biologists has a suite of specific utility tools classified in their $PATH (root) for doing core operations on common data files, for example counting the number of sequences in a .fasta file. …

How to Compress FASTQ Sequence Data by splitting into homogeneous streams

Bio Data Technology today’s education is about How to Compress FASTQ Sequence Data by splitting into homogeneous streams. first of all took FASTQ Sequence file with 3.5M reads (Data), which was Read from a paired-end Illumina 100bp run – it was about 883Mb in size. From previous education, GZIP compresses to about 1/4 the size, …

Coronavirus Antibody Database: Increasingly growth report

In May 2020, Group of students from Oxford university released the Coronavirus Antibody Database (‘CoV-AbDab’) to Manage and capture molecular information on existing coronavirus-binding antibodies, and to track what we anticipated would be a boon of data on antibodies able to bind SARS-CoV-2. At the time, They had found around 300 relevant antibody sequences and …

Free online Genome Browsers: Integrative Genome Browser (IGV).

IGV is a free by the Broad institute. IGV is a complete genome browser and, as opposed to the public resources above which run through a web browser, IGV is run as a stand-alone application a feature which can make any application much more usable and dynamic. IGV is written in Java, making it cross-platform …

BLAST : Basic discipline and definition, bioinformatics course

BLAST is one of bioinformatics techniques that is highly used in biotechnology and biopharmaceuticals research and development sections. In this article we are reviewing top questions, definition, basic discipline of BLAST as a short bioinformatics course. What is the BLAST website? BLAST is a computer algorithm that is available for use online at the National …

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